Update pkgdown page

BorchLab · Feb 19, 2024 · f56ef1d · f56ef1d
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Showing 7 changed files with 502 additions and 6 deletions.
diff --git a/NEWS.md b/NEWS.md
@@ -27,7 +27,7 @@
 * **.theCall()** now allows for a custom header/variable and checks the colnames. 
 * Replaced data arguments to be more descriptive: *df* is now *input.data*, *dir* is now *input*, and *sc* is now *sc.data*
 * Deep clean on the documentation for each function for increased consistency and explainability
-* ```Startracdiversity()``` metric re-implemented to remove startrac-class object intermediary
+* ```StartracDiversity()``` metric re-implemented to remove startrac-class object intermediary
 * Implemented powerTCR locally to reduce dependencies and continue support
 * Universalized underlying function language and intermediate variables
 * License change to MIT

diff --git a/R/positionalProperty.R b/R/positionalProperty.R
@@ -67,7 +67,7 @@ positionalProperty <- function(input.data,
     input.data <- .groupList(input.data, group.by)
   }
 
-  #Selecting Diversit Function
+  #Selecting Property Function
   propertyFunc <- switch(method,
                           "Atchley" = .af.ref,
                           "Kidera" = .kf.ref,

diff --git a/README.md b/README.md
@@ -29,7 +29,7 @@ devtools::install_github("ncborcherding/scRepertoire")
 ```
 
 ### Installing from Bioconductor
-The current version of scRepertoire is also available in the development version of Bioconductor. Important to note, the version is listed as 1.99.0 on [Bioconductor](https://bioconductor.org/packages/3.19/bioc/html/scRepertoire.html) per their version guidelines.
+The current version of scRepertoire is also available in the development version of Bioconductor. Important to note, the version is listed as 1.99.1 on [Bioconductor](https://bioconductor.org/packages/3.19/bioc/html/scRepertoire.html) per their version guidelines.
 
 ```R
 BiocManager::install(version='devel')

diff --git a/_pkgdown.yml b/_pkgdown.yml
@@ -51,6 +51,8 @@ navbar:
       href: articles/Trex.html
     - text: Combining Deep Learning and BCRs with Ibex
       href: articles/Ibex.html
+    - text: Single-cell Gene Set Enrichment Analysis
+      href: articles/Running_Escape.html
   - text: News/Changelog
     href: news/index.html
   - text: Reference
@@ -89,6 +91,7 @@ reference:
 - contents:
   - percentAA
   - positionalEntropy
+  - positionalProperty
   - percentGenes
   - percentKmer
   - percentVJ

diff --git a/inst/pkgdown.yml b/inst/pkgdown.yml
@@ -15,9 +15,10 @@ articles:
   Loading: Loading.html
   Processing: Processing.html
   Repertoire_Summary: Repertoire_Summary.html
+  Running_Escape: Running_Escape.html
   SC_Visualizations: SC_Visualizations.html
   Trex: Trex.html
-last_built: 2024-01-22T10:54Z
+last_built: 2024-02-19T12:03Z
 urls:
   reference: https://www.borch.dev/uploads/scRepertoire/reference
   article: https://www.borch.dev/uploads/scRepertoire/articles

diff --git a/vignettes/articles/Installation.Rmd b/vignettes/articles/Installation.Rmd
@@ -55,9 +55,9 @@ remotes::install_github(repo = "ncborcherding/scRepertoire", ref = "dev")
 
 ## Bioconductor
 
-The current version of scRepertoire is also available in the development version of Bioconductor. Important to note, the version is listed as 1.99.0 on [Bioconductor](https://bioconductor.org/packages/3.19/bioc/html/scRepertoire.html) per their version guidelines.
+The current version of scRepertoire is also available in the development version of Bioconductor. Important to note, the version is listed as 1.99.1 on [Bioconductor](https://bioconductor.org/packages/3.19/bioc/html/scRepertoire.html) per their version guidelines.
 
-```{r}
+```
 BiocManager::install(version='devel')
 
 BiocManager::install("scRepertoire")