diff --git a/public/acc_tcga_pan_can_atlas_2018/README.md b/public/acc_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/acc_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/acc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/acc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..b455530db2 --- /dev/null +++ b/public/acc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:9f6dfdb4b953f031add5bb50556b8904134ea4321c3d1d99db238e51fb8f0e77 +size 9840 diff --git a/public/acc_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/acc_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..782c8d25af --- /dev/null +++ b/public/acc_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:cc8a5384239cadb2a2787cc178606b3de2753bd4f818218a9810553cf6adc5dc +size 17831 diff --git a/public/acc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/acc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..8a448ea9a2 --- /dev/null +++ b/public/acc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:47d03be1917e22005267f293c0ff6a9d18bf586e175b4d69d3f08aaf4fb1bf3b +size 6058 diff --git a/public/acc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/acc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..2a128e401b --- /dev/null +++ b/public/acc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: acc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/acc_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/acc_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..afec89be99 --- /dev/null +++ b/public/acc_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: acc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/acc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/acc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..65638c064b --- /dev/null +++ b/public/acc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: acc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/blca_tcga_pan_can_atlas_2018/README.md b/public/blca_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/blca_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/blca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/blca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..b883969168 --- /dev/null +++ b/public/blca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ddd7a574655382fc770d61c947c89e509b7fe91fde1cac038b13178ce410fd43 +size 44845 diff --git a/public/blca_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/blca_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..f6fa6acd7b --- /dev/null +++ b/public/blca_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:303419cf2f4dcc2f0734cf5841603f53cb1fde7a22f04149c57099ae08749fed +size 86559 diff --git a/public/blca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/blca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..c678e8ae46 --- /dev/null +++ b/public/blca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:5f83aa2013113d15858f4a8bdcf7242597a30c768632b5569edb859520cec5e2 +size 36112 diff --git a/public/blca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/blca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..4b9ed849c5 --- /dev/null +++ b/public/blca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: blca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/blca_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/blca_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..efd3f674d7 --- /dev/null +++ b/public/blca_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: blca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/blca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/blca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..ab515fb9c9 --- /dev/null +++ b/public/blca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: blca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/brca_tcga_pan_can_atlas_2018/README.md b/public/brca_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/brca_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/brca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/brca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..08f08b7deb --- /dev/null +++ b/public/brca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:dcb292935bef37f732185ff90b3efac8ab73067096d4eaf4f1df6c2c8b40d539 +size 106516 diff --git a/public/brca_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/brca_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..72a596a110 --- /dev/null +++ b/public/brca_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:b4ec76c24472046fd5e4a65e4a0d4c46a29eff8a2a4e109ecc43ae28cf57afd4 +size 167337 diff --git a/public/brca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/brca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..0c62b2fc7d --- /dev/null +++ b/public/brca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:73811eea8311876f03a2f2faea79266357c15a111b7f5473d5bd700cccf9080e +size 298480 diff --git a/public/brca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/brca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..45897993e0 --- /dev/null +++ b/public/brca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: brca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/brca_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/brca_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..927bdfc799 --- /dev/null +++ b/public/brca_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: brca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/brca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/brca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..a6449b8d61 --- /dev/null +++ b/public/brca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: brca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt \ No newline at end of file diff --git a/public/cesc_tcga_pan_can_atlas_2018/README.md b/public/cesc_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/cesc_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/cesc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/cesc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..96d9340d89 --- /dev/null +++ b/public/cesc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6613cb594b57df5ce5683597371e35d8c04d219fb265a20b7244b988b55d2983 +size 31044 diff --git a/public/cesc_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/cesc_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..2cde60fca4 --- /dev/null +++ b/public/cesc_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:744b5c20badea542742ebd55688c184b5fec24b0e0aaf871aa1107d58b9cadfe +size 72977 diff --git a/public/cesc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/cesc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..0c510d30f4 --- /dev/null +++ b/public/cesc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:26c67a8f2c3af47d9b58bb05dd5e51def07e050be413af126ffc51866274737c +size 52264 diff --git a/public/cesc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/cesc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..6899e7940b --- /dev/null +++ b/public/cesc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: cesc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/cesc_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/cesc_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..e020e86403 --- /dev/null +++ b/public/cesc_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: cesc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/cesc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/cesc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..8dfe6d24fc --- /dev/null +++ b/public/cesc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: cesc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/chol_tcga_pan_can_atlas_2018/README.md b/public/chol_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/chol_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/chol_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/chol_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..e27de3e532 --- /dev/null +++ b/public/chol_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:4aa851e862766eae84b717d434a268a7165ab0f10810a2ac1b551f174484b6ba +size 3940 diff --git a/public/chol_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/chol_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..ee38ccbc8a --- /dev/null +++ b/public/chol_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:286a61afabb813b9f63a9db5ae8f75c5a88818066aadce3fcbcb2d5c9efd8e28 +size 6261 diff --git a/public/chol_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/chol_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..2302154ec0 --- /dev/null +++ b/public/chol_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:1cebf5b81ba5478814cf7c7285e7d8e13dacb59a14a780d945abba308d7049b4 +size 2127 diff --git a/public/chol_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/chol_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..724582a3f6 --- /dev/null +++ b/public/chol_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: chol_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/chol_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/chol_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..25e5a8ee6b --- /dev/null +++ b/public/chol_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: chol_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/chol_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/chol_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..3db42664af --- /dev/null +++ b/public/chol_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: chol_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/coadread_tcga_pan_can_atlas_2018/README.md b/public/coadread_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/coadread_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/coadread_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/coadread_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..d2b16c7cc7 --- /dev/null +++ b/public/coadread_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:139b88b5c3b0c54dbaf32e21ca390204724a5bdf525eb9f8727fd615a796ae5b +size 61773 diff --git a/public/coadread_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/coadread_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..12ebc9c528 --- /dev/null +++ b/public/coadread_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:46da71684bab67fe177d7c9527af4a56aad08d5c42d3f862cf1bb4300eb2a94d +size 81368 diff --git a/public/coadread_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/coadread_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..f9bdad484e --- /dev/null +++ b/public/coadread_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:f86575516a0417e875c409ffd3aa163749418c2745537fa82f0450d375ff16c9 +size 86515 diff --git a/public/coadread_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/coadread_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..a8417c3587 --- /dev/null +++ b/public/coadread_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: coadread_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/coadread_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/coadread_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..9c92f35980 --- /dev/null +++ b/public/coadread_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: coadread_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/coadread_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/coadread_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..1c30eb723b --- /dev/null +++ b/public/coadread_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: coadread_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/dlbc_tcga_pan_can_atlas_2018/README.md b/public/dlbc_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/dlbc_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/dlbc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/dlbc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..c26e5b35fd --- /dev/null +++ b/public/dlbc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:b37669fd9f3ec79fbeeeae4f6015179f456f53b44d02b7c19912852dbbc681a4 +size 5387 diff --git a/public/dlbc_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/dlbc_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..52dce04fab --- /dev/null +++ b/public/dlbc_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:d6224f2b11cc5bbddd4916c3b43c595a1afd7d001359c859a0b570c0843fa2b2 +size 9173 diff --git a/public/dlbc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/dlbc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..c8f98561a3 --- /dev/null +++ b/public/dlbc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:338d4c6cf63f9947b48bc5e557d580e920e5bd382d62bf2e9c2b0cf4ea966b36 +size 30858 diff --git a/public/dlbc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/dlbc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..68aa3d7fdb --- /dev/null +++ b/public/dlbc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: dlbc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/dlbc_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/dlbc_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..aba4c52c45 --- /dev/null +++ b/public/dlbc_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: dlbc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/dlbc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/dlbc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..fdff0f9a65 --- /dev/null +++ b/public/dlbc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: dlbc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/esca_tcga_pan_can_atlas_2018/README.md b/public/esca_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/esca_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/esca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/esca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..e1f4200400 --- /dev/null +++ b/public/esca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:3972babdc6db32075af5dffc771148aaf1e26df5ff42dbe2ad076de8aec18679 +size 19266 diff --git a/public/esca_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/esca_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..4016a1639e --- /dev/null +++ b/public/esca_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:27ecb46c7ff7e222545c8f3860a48265976787bfed5dc4e9adeba2ce82adac89 +size 37350 diff --git a/public/esca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/esca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..4af4359874 --- /dev/null +++ b/public/esca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:20df6e77229b04a453c38eeef3db170a3a4f36e9fcf6cc6882d8e631d0e795d4 +size 14882 diff --git a/public/esca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/esca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..238f9ca1ae --- /dev/null +++ b/public/esca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: esca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/esca_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/esca_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..1ecf4af82b --- /dev/null +++ b/public/esca_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: esca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/esca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/esca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..d09cd68f01 --- /dev/null +++ b/public/esca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: esca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/gbm_tcga_pan_can_atlas_2018/README.md b/public/gbm_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/gbm_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/gbm_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/gbm_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..3de11a8210 --- /dev/null +++ b/public/gbm_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:feefe0164555e1add1835c6ec93aea5dca976eb10bbc56640099479dd746884c +size 2290 diff --git a/public/gbm_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/gbm_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..263cf48318 --- /dev/null +++ b/public/gbm_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:3f990f8c230b844aef14cf1bae142ba5131bfe43130687ba83813184bd0240d3 +size 77447 diff --git a/public/gbm_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/gbm_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..eaf296044a --- /dev/null +++ b/public/gbm_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:cbe25e029144068d6142d1d57b474cc8689d2b51698631adbb62a608c2ead1eb +size 215002 diff --git a/public/gbm_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/gbm_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..403ad0a429 --- /dev/null +++ b/public/gbm_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: gbm_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/gbm_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/gbm_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..623af84aa5 --- /dev/null +++ b/public/gbm_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: gbm_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/gbm_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/gbm_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..a1f4b8d53d --- /dev/null +++ b/public/gbm_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: gbm_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/hnsc_tcga_pan_can_atlas_2018/README.md b/public/hnsc_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/hnsc_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/hnsc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/hnsc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..65fb8f4c56 --- /dev/null +++ b/public/hnsc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:1462bf0dc05e533f4449b825d9f8545ae16e6b97c348e800ba86155aa5fe08fe +size 47083 diff --git a/public/hnsc_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/hnsc_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..d06f2fe5fa --- /dev/null +++ b/public/hnsc_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:dc3aa7993a11a8085c5175b81978df4924d6b168f5eb59453787f430b3ebf732 +size 94737 diff --git a/public/hnsc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/hnsc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..0ecacf7e14 --- /dev/null +++ b/public/hnsc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:4bfcfed4a86dab91d9beb08e68cd5936ec97738b0bce7540d5ccb9c3180271b2 +size 94709 diff --git a/public/hnsc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/hnsc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..9f59446835 --- /dev/null +++ b/public/hnsc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: hnsc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/hnsc_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/hnsc_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..741e483090 --- /dev/null +++ b/public/hnsc_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: hnsc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/hnsc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/hnsc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..6ac0b89d6e --- /dev/null +++ b/public/hnsc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: hnsc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/kich_tcga_pan_can_atlas_2018/README.md b/public/kich_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/kich_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/kich_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/kich_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..533f7daf7c --- /dev/null +++ b/public/kich_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:c291c1efd745045ba4641b5a3ed593f7387fd8fc8edb7e4a8dca6d97827d38c3 +size 8478 diff --git a/public/kich_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/kich_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..a064ef8f86 --- /dev/null +++ b/public/kich_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:25862c557f1218a7767bcc867353b55d50e93009d476011847a6c9f7a4c0169e +size 9053 diff --git a/public/kich_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/kich_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..09841f07c7 --- /dev/null +++ b/public/kich_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:2f621fa565184028ef31081c47b43a1b8833a0602dcc624911f67faa98d61715 +size 2118 diff --git a/public/kich_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/kich_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..8d83c65362 --- /dev/null +++ b/public/kich_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: kich_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/kich_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/kich_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..6efa265f01 --- /dev/null +++ b/public/kich_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: kich_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/kich_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/kich_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..86fdd9f100 --- /dev/null +++ b/public/kich_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: kich_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/kirc_tcga_pan_can_atlas_2018/README.md b/public/kirc_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/kirc_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/kirc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/kirc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..7a4aca2b90 --- /dev/null +++ b/public/kirc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:5b5f22ea0dd9adf35eade07f9a4e01c0faf6348fa8c29e7e95803fa49a13cf5f +size 54090 diff --git a/public/kirc_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/kirc_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..eeed7109c0 --- /dev/null +++ b/public/kirc_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6bb161d561d108f4e7c09159523e5387cbdaebd90dea516b13eaf5a78cbf8c39 +size 67092 diff --git a/public/kirc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/kirc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..85d2dfb2a5 --- /dev/null +++ b/public/kirc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:a58b8ed8789e17c4366bf972b211b977a957590f0a628553180b19946567b50b +size 27314 diff --git a/public/kirc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/kirc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..80f0bb44fb --- /dev/null +++ b/public/kirc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: kirc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/kirc_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/kirc_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..7bbd7c785d --- /dev/null +++ b/public/kirc_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: kirc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/kirc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/kirc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..b5c8cac688 --- /dev/null +++ b/public/kirc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: kirc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/kirp_tcga_pan_can_atlas_2018/README.md b/public/kirp_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/kirp_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/kirp_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/kirp_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..aa2ad3725d --- /dev/null +++ b/public/kirp_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:470f5e3399e2421110b8ebba80ff81e10c9ddd30b61e4a13123f3449a667f1b9 +size 33864 diff --git a/public/kirp_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/kirp_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..66b9282b17 --- /dev/null +++ b/public/kirp_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:08642094363246b82e38869145c29645ff15fe260b46de6d4f763d6dfaa78422 +size 42448 diff --git a/public/kirp_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/kirp_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..95127bb06e --- /dev/null +++ b/public/kirp_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:f05961d8bf208d3b7acd16ce4c836659818081893b4b297c8dffd7ecb09a2914 +size 7172 diff --git a/public/kirp_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/kirp_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..da42ce3ebb --- /dev/null +++ b/public/kirp_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: kirp_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/kirp_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/kirp_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..a61796360e --- /dev/null +++ b/public/kirp_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: kirp_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/kirp_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/kirp_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..8063785152 --- /dev/null +++ b/public/kirp_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: kirp_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/laml_tcga_pan_can_atlas_2018/README.md b/public/laml_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/laml_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/laml_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/laml_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..711e7030ce --- /dev/null +++ b/public/laml_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:1ef4ed75474596118f242f86d79290846577efd01c7bc2ef8cb5f3c8bea1e381 +size 15030 diff --git a/public/laml_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/laml_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..e1befad7fe --- /dev/null +++ b/public/laml_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: laml_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/lgg_tcga_pan_can_atlas_2018/README.md b/public/lgg_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/lgg_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/lgg_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/lgg_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..73c3c89d03 --- /dev/null +++ b/public/lgg_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:c36692f040711cbe838817f7cc2c937c8c0987f4560cb8a1d474981b53eb7da5 +size 56296 diff --git a/public/lgg_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/lgg_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..a46a736dce --- /dev/null +++ b/public/lgg_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:4627473138d99a55096530b6058965e47fe0f1f2b1c015473b46d644ef75d79e +size 71458 diff --git a/public/lgg_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/lgg_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..d60f2f4cff --- /dev/null +++ b/public/lgg_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6500afe421129eeff3d2dda4b6f7eeb7143df14e9dbe262dbace1f8e5e169c98 +size 117784 diff --git a/public/lgg_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/lgg_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..ec6d159d27 --- /dev/null +++ b/public/lgg_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: lgg_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/lgg_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/lgg_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..8bb608cb9d --- /dev/null +++ b/public/lgg_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: lgg_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/lgg_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/lgg_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..6d5fbcc485 --- /dev/null +++ b/public/lgg_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: lgg_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/lihc_tcga_pan_can_atlas_2018/README.md b/public/lihc_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/lihc_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/lihc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/lihc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..61d9bd21d3 --- /dev/null +++ b/public/lihc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:2d1d7a82d065cd84e859518b6cb5f0a2106f221be2b8c2ab0372267eeebd54ba +size 40409 diff --git a/public/lihc_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/lihc_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..f287f68f3d --- /dev/null +++ b/public/lihc_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:9fe6754984c16cd7013184afa29779140dfca2dd861e50c5419c17cad0debfce +size 59776 diff --git a/public/lihc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/lihc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..4b4b135835 --- /dev/null +++ b/public/lihc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:03f2dcfb07f1b27bf887a675bef533a6a00a6640cb9e4c6f5d45bdd556a5fa93 +size 8757 diff --git a/public/lihc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/lihc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..47145cfe33 --- /dev/null +++ b/public/lihc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: lihc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/lihc_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/lihc_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..efe0f48c13 --- /dev/null +++ b/public/lihc_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: lihc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/lihc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/lihc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..3f0344d380 --- /dev/null +++ b/public/lihc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: lihc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/luad_tcga_pan_can_atlas_2018/README.md b/public/luad_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/luad_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/luad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/luad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..c55e8db63d --- /dev/null +++ b/public/luad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:c65a6afcc2d8da6224a22dfd8bf1d6ccbe371c132f855f3ce532bd71e6200ce3 +size 52398 diff --git a/public/luad_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/luad_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..e726314063 --- /dev/null +++ b/public/luad_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:c50db5fff24001d2a712202637fe52ca7e2516600ab791a79986c607e3019df6 +size 73075 diff --git a/public/luad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/luad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..e5aa403f28 --- /dev/null +++ b/public/luad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:58428650134b716fcd6190d40dd9edf964be91247733a1ee4f22c15237b66d2c +size 60559 diff --git a/public/luad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/luad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..9b3ceb38d5 --- /dev/null +++ b/public/luad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: luad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/luad_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/luad_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..3eeb91020b --- /dev/null +++ b/public/luad_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: luad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/luad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/luad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..5185ec33c3 --- /dev/null +++ b/public/luad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: luad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/lusc_tcga_pan_can_atlas_2018/README.md b/public/lusc_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/lusc_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/lusc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/lusc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..cf0c453f5a --- /dev/null +++ b/public/lusc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:62f454fa6e492627015c129b10ff95b719a66016e1741e9ae9709831464ff94b +size 50767 diff --git a/public/lusc_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/lusc_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..89dee3ad67 --- /dev/null +++ b/public/lusc_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6348b7ba689126f445fa7fef4b6a180206bce93fc77d4494d2275696c89767fc +size 67587 diff --git a/public/lusc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/lusc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..570d0a434d --- /dev/null +++ b/public/lusc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:52fc03ab00c12b9aedee402c949dcce6974fc9da566a4a8872ae71d74cef8ad2 +size 42909 diff --git a/public/lusc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/lusc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..48cab9488d --- /dev/null +++ b/public/lusc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: lusc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/lusc_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/lusc_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..cff2f57839 --- /dev/null +++ b/public/lusc_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: lusc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/lusc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/lusc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..57a6dc3083 --- /dev/null +++ b/public/lusc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: lusc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/meso_tcga_pan_can_atlas_2018/README.md b/public/meso_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/meso_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/meso_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/meso_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..805310128b --- /dev/null +++ b/public/meso_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:63e0ec520f5b1f2292228b808bfc83c98c1b02cc1eb2c7e9cf92913773fb8950 +size 9345 diff --git a/public/meso_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/meso_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..c03509f8c7 --- /dev/null +++ b/public/meso_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:79e36558884a519081b53cdd890c0d072729b88b3397b7ef4adc0b778196fe1c +size 18537 diff --git a/public/meso_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/meso_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..0a07bc2785 --- /dev/null +++ b/public/meso_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:7f67fe5f3ce88fce144c75b2008b2efe7de715cbfb28678887cfd9107fea343e +size 18619 diff --git a/public/meso_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/meso_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..60ec25f982 --- /dev/null +++ b/public/meso_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: meso_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/meso_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/meso_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..a347411365 --- /dev/null +++ b/public/meso_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: meso_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/meso_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/meso_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..6a1298d138 --- /dev/null +++ b/public/meso_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: meso_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/ov_tcga_pan_can_atlas_2018/README.md b/public/ov_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/ov_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/ov_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/ov_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..40376b0896 --- /dev/null +++ b/public/ov_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:710c8901177f4d87a32f34562e92ddbb2502f1ea0f7adf6fd9923c2a9d96d6ba +size 1973 diff --git a/public/ov_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/ov_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..dd6ed29d02 --- /dev/null +++ b/public/ov_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:5f2d0d6a7e8d4c33bbe4ba235ea1b47998037265855c5f1b200e6c8f5293abda +size 89184 diff --git a/public/ov_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/ov_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..a36416d5a4 --- /dev/null +++ b/public/ov_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:24b4f41f73c7e64c1e7671e787c87406e33ad9e5b027a26a82214c6a4ff9bc47 +size 237113 diff --git a/public/ov_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/ov_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..ed39358c6c --- /dev/null +++ b/public/ov_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ov_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/ov_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/ov_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..60b24fc143 --- /dev/null +++ b/public/ov_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ov_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/ov_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/ov_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..c759fb4aa4 --- /dev/null +++ b/public/ov_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ov_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/paad_tcga_pan_can_atlas_2018/README.md b/public/paad_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/paad_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/paad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/paad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..51b90e73b3 --- /dev/null +++ b/public/paad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:2020c09c358d322a18b89054884abae01772b9dc59ee6dcc17759ca174989a12 +size 20653 diff --git a/public/paad_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/paad_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..22017229bd --- /dev/null +++ b/public/paad_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:7b12e420aaa0710d420dd08c57377aba8e4c5c75c4ba39d267e050a54fc35690 +size 36225 diff --git a/public/paad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/paad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..99b384ee6c --- /dev/null +++ b/public/paad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:48099178e73502b80267f4d3c33ca73639cbfa882ea50c94db2db433b1ca0983 +size 30863 diff --git a/public/paad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/paad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..76be0a6fe4 --- /dev/null +++ b/public/paad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: paad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/paad_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/paad_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..018808d3f3 --- /dev/null +++ b/public/paad_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: paad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/paad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/paad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..09859d818f --- /dev/null +++ b/public/paad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: paad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/pcpg_tcga_pan_can_atlas_2018/README.md b/public/pcpg_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/pcpg_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/pcpg_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/pcpg_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..5edc0420dd --- /dev/null +++ b/public/pcpg_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:103876dd6f519dede5140dfc3aec9a9cfca8b086a85ae276bf27c9cd5d785f4c +size 19709 diff --git a/public/pcpg_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/pcpg_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..ce81da1f43 --- /dev/null +++ b/public/pcpg_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:76f547dc00e70803f83812b195f4ff772f267868c8c680ac3bacfd26c889e2bb +size 20592 diff --git a/public/pcpg_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/pcpg_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..f3b65100a8 --- /dev/null +++ b/public/pcpg_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:15ad474180f4aa78b2834c04c44b5ebc9f2488b50da855f6e089f793140f469e +size 2618 diff --git a/public/pcpg_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/pcpg_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..cd44df3234 --- /dev/null +++ b/public/pcpg_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: pcpg_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/pcpg_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/pcpg_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..17e9e05ad9 --- /dev/null +++ b/public/pcpg_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: pcpg_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/pcpg_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/pcpg_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..d1cd4201eb --- /dev/null +++ b/public/pcpg_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: pcpg_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/prad_tcga_pan_can_atlas_2018/README.md b/public/prad_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/prad_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/prad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/prad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..79c80ee73d --- /dev/null +++ b/public/prad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:be2cb011c7c88a8fa0a43e6767f25baaa28bcdef5ea0e72ccb5eb98e9e7fc363 +size 54261 diff --git a/public/prad_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/prad_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..667ce6e873 --- /dev/null +++ b/public/prad_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ffe234edd72819fd3dc52586862bd45eee77a99b4c41c8aa9cdf80f2992a4ef0 +size 121956 diff --git a/public/prad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/prad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..e36705180e --- /dev/null +++ b/public/prad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6437e921e4af4ef0b62d1f5b6adeb82c2c2ef39e9fa295ae977dad8eb974ec8c +size 23624 diff --git a/public/prad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/prad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..87d06ceb2f --- /dev/null +++ b/public/prad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: prad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/prad_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/prad_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..b80076072f --- /dev/null +++ b/public/prad_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: prad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/prad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/prad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..5c74496d6e --- /dev/null +++ b/public/prad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: prad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/sarc_tcga_pan_can_atlas_2018/README.md b/public/sarc_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/sarc_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/sarc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/sarc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..70485305dd --- /dev/null +++ b/public/sarc_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6f7fa2f30b2cf33e4a47f9b0221a62e0f687fd84e5170c544b4d93584616c028 +size 28090 diff --git a/public/sarc_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/sarc_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..967cc0ad23 --- /dev/null +++ b/public/sarc_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:bd32fbba95399bb8852fe74a9771269260ad43bbbac36648b097aeb76f91ee1c +size 40266 diff --git a/public/sarc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/sarc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..234de85995 --- /dev/null +++ b/public/sarc_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ebb6f21f7cc87dc333ebc147a7efc2de40130e6ab83f3fbd4e45bdc2c1d41f12 +size 34237 diff --git a/public/sarc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/sarc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..bc5a278c9a --- /dev/null +++ b/public/sarc_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: sarc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/sarc_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/sarc_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..42e39afc70 --- /dev/null +++ b/public/sarc_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: sarc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/sarc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/sarc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..4cf8b84527 --- /dev/null +++ b/public/sarc_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: sarc_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/skcm_tcga_pan_can_atlas_2018/README.md b/public/skcm_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/skcm_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/skcm_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/skcm_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..c7c4d7ee8a --- /dev/null +++ b/public/skcm_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:5fb7149f44e69ebb795b4ec07e6fc762bc239a2a98a25e686ca4ad4de7b7ffe7 +size 52602 diff --git a/public/skcm_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/skcm_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..43118b7ffb --- /dev/null +++ b/public/skcm_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:22a37ab2dce9c421d18b3efee5bb7bc0831a53551fb9a0d9af28c8ec91fdfe9d +size 111316 diff --git a/public/skcm_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/skcm_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..4c09c2c5e6 --- /dev/null +++ b/public/skcm_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:94af05e4d966064e4deefd99085a5d3dc786f21ac704d0c3e052e910d39bc802 +size 44076 diff --git a/public/skcm_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/skcm_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..3c77cb5c4e --- /dev/null +++ b/public/skcm_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: skcm_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/skcm_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/skcm_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..09e73992d0 --- /dev/null +++ b/public/skcm_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: skcm_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/skcm_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/skcm_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..9fe6918a31 --- /dev/null +++ b/public/skcm_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: skcm_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/stad_tcga_pan_can_atlas_2018/README.md b/public/stad_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/stad_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/stad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/stad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..0a90ba2d4f --- /dev/null +++ b/public/stad_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:152c165e2bebf51dc669002d47789669a6037bb004677ed34b7ffd993fd4a2c9 +size 45580 diff --git a/public/stad_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/stad_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..dbeb77db02 --- /dev/null +++ b/public/stad_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:248da1a865c458f108be104fa1a12366149ea917160f9e06e4aa83f17d94b0fa +size 62390 diff --git a/public/stad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/stad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..802e781431 --- /dev/null +++ b/public/stad_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:e2afd836ffa2dcff406f0f517fad79e788058e4ba32541c834530af6cbc44742 +size 54462 diff --git a/public/stad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/stad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..804f6f097a --- /dev/null +++ b/public/stad_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: stad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/stad_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/stad_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..c4888cdb0e --- /dev/null +++ b/public/stad_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: stad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/stad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/stad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..3d5edb289d --- /dev/null +++ b/public/stad_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: stad_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/tgct_tcga_pan_can_atlas_2018/README.md b/public/tgct_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/tgct_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/tgct_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/tgct_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..aa735eb815 --- /dev/null +++ b/public/tgct_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:8931bd4f0b01bd65486a1cd963b751bce9389e58ccb5fbf6dbdf3a70aa2132eb +size 13159 diff --git a/public/tgct_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/tgct_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..c60fa24f80 --- /dev/null +++ b/public/tgct_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:5811bbb0320b2422020e08b31284ebd69468187b6f8d88b4a3a57f4e5d583c3b +size 31357 diff --git a/public/tgct_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/tgct_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..89b42ba9d5 --- /dev/null +++ b/public/tgct_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:40955c2fdbf48124a2bc48db82363dc4321441c0beb0c8c9d00efbdebb182019 +size 20313 diff --git a/public/tgct_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/tgct_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..d2e7606e10 --- /dev/null +++ b/public/tgct_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: tgct_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/tgct_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/tgct_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..33cc42c67e --- /dev/null +++ b/public/tgct_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: tgct_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/tgct_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/tgct_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..3675e69fc7 --- /dev/null +++ b/public/tgct_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: tgct_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/thca_tcga_pan_can_atlas_2018/README.md b/public/thca_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/thca_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/thca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/thca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..bef9750a05 --- /dev/null +++ b/public/thca_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:7a630b09c360956a5699dcd329000160bdc847bfaa90b4a49d1819ba97c32218 +size 59821 diff --git a/public/thca_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/thca_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..348731c423 --- /dev/null +++ b/public/thca_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:08b7c1f402f28e910ae2ba70410200243821e51a0300e32179dac0e6aef19319 +size 68769 diff --git a/public/thca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/thca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..aefc5ef1e6 --- /dev/null +++ b/public/thca_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:5bae10f2f80792a5fa025da6eb8606165a8a90ba3634ba705fde6c7169d9472e +size 42273 diff --git a/public/thca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/thca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..a8dc3ac711 --- /dev/null +++ b/public/thca_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: thca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/thca_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/thca_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..44a0830d8f --- /dev/null +++ b/public/thca_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: thca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/thca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/thca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..af1f536055 --- /dev/null +++ b/public/thca_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: thca_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/thym_tcga_pan_can_atlas_2018/README.md b/public/thym_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/thym_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/thym_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/thym_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..45d97a08fb --- /dev/null +++ b/public/thym_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:07309a21d7a485d8f805cd97e51cf3f8916b95216ec053447d8208afca7bdde1 +size 12658 diff --git a/public/thym_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/thym_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..c39d883f12 --- /dev/null +++ b/public/thym_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:bfc97964f6d9e6fa9e004b497fd0ee7d1501b256a3225d4d47ae752953c0d744 +size 18792 diff --git a/public/thym_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/thym_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..0e63057221 --- /dev/null +++ b/public/thym_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:8259dbd300d866384c1f7fcbf0d8556c9d6ca295b369c29c3027105bc25bee01 +size 7101 diff --git a/public/thym_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/thym_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..06e9d502a2 --- /dev/null +++ b/public/thym_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: thym_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/thym_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/thym_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..297dbbbe9c --- /dev/null +++ b/public/thym_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: thym_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/thym_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/thym_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..4040b06cc2 --- /dev/null +++ b/public/thym_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: thym_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/ucec_tcga_pan_can_atlas_2018/README.md b/public/ucec_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/ucec_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/ucec_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/ucec_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..2b81c3c8aa --- /dev/null +++ b/public/ucec_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:0ee58821cd26f08694afae9834f73b5dd31ea4ced376b1c3b4083e72fdc1a89b +size 54527 diff --git a/public/ucec_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/ucec_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..c380b5912e --- /dev/null +++ b/public/ucec_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:9bca7cbabc3f71d2c2f87dc9bdf5657816e5e7281800502a4751028ecb970ce4 +size 90577 diff --git a/public/ucec_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/ucec_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..872082fa28 --- /dev/null +++ b/public/ucec_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:7cfb151ff916b8ee16e40c227414e4389beee93f315f01168a492597a1f59277 +size 81545 diff --git a/public/ucec_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/ucec_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..794d6bc9fc --- /dev/null +++ b/public/ucec_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ucec_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/ucec_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/ucec_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..e515dbf28e --- /dev/null +++ b/public/ucec_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ucec_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/ucec_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/ucec_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..89f208324c --- /dev/null +++ b/public/ucec_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ucec_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/ucs_tcga_pan_can_atlas_2018/README.md b/public/ucs_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/ucs_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/ucs_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/ucs_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..b7ff84e90a --- /dev/null +++ b/public/ucs_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:0d6a4af7a6ae2b6f50b83b2cc41bde8c434534a135cf2c760c82318b070cb025 +size 6101 diff --git a/public/ucs_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/ucs_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..825b78565a --- /dev/null +++ b/public/ucs_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ab55b23c8b9faa5b87be3711dde05857e5b4826335db7a5e83e718808c40ff1d +size 10268 diff --git a/public/ucs_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/ucs_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..570d02abd4 --- /dev/null +++ b/public/ucs_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:3f35b0d500b1148853e890bcadac2e121ebffb03f22684b28f536680f72ae4cf +size 14450 diff --git a/public/ucs_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/ucs_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..06768366f9 --- /dev/null +++ b/public/ucs_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ucs_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/ucs_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/ucs_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..7741cd1388 --- /dev/null +++ b/public/ucs_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ucs_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/ucs_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/ucs_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..90ce90aab0 --- /dev/null +++ b/public/ucs_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ucs_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt diff --git a/public/uvm_tcga_pan_can_atlas_2018/README.md b/public/uvm_tcga_pan_can_atlas_2018/README.md new file mode 100644 index 0000000000..b64cd59ae4 --- /dev/null +++ b/public/uvm_tcga_pan_can_atlas_2018/README.md @@ -0,0 +1,10 @@ +## Improving PanCancer Atlas Data: (transformation steps for the new data types being added) + +### The Timeline/Treatment data: + +**Data Source** +- GDAC Firehose: https://gdac.broadinstitute.org/ +- File Used: `Merge_Clinical.Level_1.20160128` (clin.merged.txt) for each cancer type. + +**Data Transformation** +- The detailed transformation steps are listed in the Pull Request [here](https://github.com/cBioPortal/datahub/pull/1597) \ No newline at end of file diff --git a/public/uvm_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt b/public/uvm_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..f3a29d06c5 --- /dev/null +++ b/public/uvm_tcga_pan_can_atlas_2018/data_timeline_sample_acquisition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:04ec5365cc4d2525bdd8584ac33fa8e702c8c8f1bc90b93ac9b57f2b0fa99915 +size 7989 diff --git a/public/uvm_tcga_pan_can_atlas_2018/data_timeline_status.txt b/public/uvm_tcga_pan_can_atlas_2018/data_timeline_status.txt new file mode 100644 index 0000000000..1736123fc2 --- /dev/null +++ b/public/uvm_tcga_pan_can_atlas_2018/data_timeline_status.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:77877654b0c9cf723000477602552851a2e9180a137e6a18148fb69a99c360d2 +size 15066 diff --git a/public/uvm_tcga_pan_can_atlas_2018/data_timeline_treatment.txt b/public/uvm_tcga_pan_can_atlas_2018/data_timeline_treatment.txt new file mode 100644 index 0000000000..5bf56e9091 --- /dev/null +++ b/public/uvm_tcga_pan_can_atlas_2018/data_timeline_treatment.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:da3450f1bff3d4f2c138fc139993ec4f14d5184f7b8be163897fbb65f2ba7b9d +size 1182 diff --git a/public/uvm_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt b/public/uvm_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt new file mode 100644 index 0000000000..aa3a5f5699 --- /dev/null +++ b/public/uvm_tcga_pan_can_atlas_2018/meta_timeline_sample_acquisition.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: uvm_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_sample_acquisition.txt diff --git a/public/uvm_tcga_pan_can_atlas_2018/meta_timeline_status.txt b/public/uvm_tcga_pan_can_atlas_2018/meta_timeline_status.txt new file mode 100644 index 0000000000..ad22a03a23 --- /dev/null +++ b/public/uvm_tcga_pan_can_atlas_2018/meta_timeline_status.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: uvm_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_status.txt diff --git a/public/uvm_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt b/public/uvm_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt new file mode 100644 index 0000000000..5267f6c6e2 --- /dev/null +++ b/public/uvm_tcga_pan_can_atlas_2018/meta_timeline_treatment.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: uvm_tcga_pan_can_atlas_2018 +genetic_alteration_type: CLINICAL +datatype: TIMELINE +data_filename: data_timeline_treatment.txt