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VAI BBC

Van Andel Institute Bioinformatics and Biostatistics Core

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  1. rnaseq_workflow rnaseq_workflow Public

    snakemake workflow for bulk RNA-seq workflow using STAR-edgeR

    Python 10 17

  2. Biscuit_Snakemake_Workflow Biscuit_Snakemake_Workflow Public archive

    Snakemake Workflow For WGBS Data

    Python 3 12

  3. scRNAseq scRNAseq Public

    Python 2

  4. Pioli_2022_ASCs_code Pioli_2022_ASCs_code Public

    R 2

  5. piwi_RNA_pipeline piwi_RNA_pipeline Public

    Scripts for heirarchical assignment of reads to feature biotypes

    Perl 1

  6. GROseq_scripts GROseq_scripts Public

    Shell 1

Repositories

Showing 10 of 34 repositories
  • CUT-Tag-workflow Public

    This workflow performs trimming, alignment, and generates BigWig and BED files for CUT&Tag data. The workflow is optimized for the HPC environment at Van Andel Institute, but it can be easily modified for general use on other systems.

    Python 0 GPL-3.0 0 0 0 Updated Apr 10, 2025
  • methylation_array Public
    R 0 0 2 0 Updated Apr 7, 2025
  • VBCS-1355 Public
    HTML 0 0 0 0 Updated Apr 7, 2025
  • VAI-BBC-genomics-randomization-pipeline Public
    0 GPL-3.0 0 0 0 Updated Mar 21, 2025
  • gradient-metabolomics-VBCS-1384 Public

    A shareable code space between Hannah Damico (VAI BBC) + Richard Cassidy (VAI Fondufe-Mittendorf Lab)

    R 0 GPL-3.0 0 0 0 Updated Mar 7, 2025
  • Ugcg-KO_proteomics_analysis Public

    Proteomics + Enrichment analysis code for comparing Ugcg-KO samples

    0 0 0 0 Updated Feb 21, 2025
  • BBC-Workflows-CurrentPackages Public

    Creating a repo to save functions that we've made + currently packages or functions that we prefer for certain methods.

    0 0 0 0 Updated Feb 21, 2025
  • VAI-RWorkshop-2024 Public

    Accessing documents from VAI R workshop 2024

    HTML 0 GPL-3.0 0 0 0 Updated Feb 21, 2025
  • prep_bbc_shared Public

    Pipeline for preparing shared resources such as aligner index files in the BBC.

    Python 0 GPL-3.0 0 1 0 Updated Feb 10, 2025
  • rnaseq_workflow Public

    snakemake workflow for bulk RNA-seq workflow using STAR-edgeR

    Python 10 GPL-3.0 17 3 2 Updated Feb 4, 2025
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