Skip to content

@vari-bbc VAI BBC

Change the repository type filter

All

    Repositories list

    51 repositories

    • RNA-Seq-Workflow-App

      Public
      apps
      apps
      R
      •
      GNU General Public License v3.0
      •0•1•3•0•Updated Jul 13, 2026Jul 13, 2026

    • rnaseq_workflow

      Public
      snakemake workflow for bulk RNA-seq workflow using STAR-edgeR
      workflows
      workflows
      Python
      •
      GNU General Public License v3.0
      •17•13•3•0•Updated Jul 13, 2026Jul 13, 2026

    • variants-gatk4

      Public
      workflows
      workflows
      Python
      •
      GNU General Public License v3.0
      •0•1•1•0•Updated Jul 10, 2026Jul 10, 2026

    • Mouse-to-Usable_M2U

      Public
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jun 26, 2026Jun 26, 2026

    • souper-star

      Public
      Fork of the souper-star repo from FredHutch.
      Nextflow
      •
      MIT License
      •0•0•0•1•Updated Jun 12, 2026Jun 12, 2026

    • .github

      Public
      0•0•0•0•Updated May 18, 2026May 18, 2026

    • VBCS-1645

      Public
      Nextflow pipeline for 1645
      Nextflow
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 6, 2026May 6, 2026

    • sciCT_pipeline

      Public
      A Nextflow implementation of the sciCTextract demux from mfitzgib.
      workflows
      workflows
      Nextflow
      •
      GNU General Public License v3.0
      •1•0•0•1•Updated Apr 15, 2026Apr 15, 2026

    • snm3C-seq

      Public
      snm3C-seq processing
      workflows
      workflows
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Apr 15, 2026Apr 15, 2026

    • ABRF-Code-and-Talk

      Public
      instructional
      instructional
      R
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Mar 31, 2026Mar 31, 2026

    • methylation_array

      Public
      workflows
      workflows
      R
      •0•1•3•0•Updated Mar 14, 2026Mar 14, 2026

    • prep_bbc_shared

      Public
      Pipeline for preparing shared resources such as aligner index files in the BBC.
      workflows
      workflows
      Python
      •
      GNU General Public License v3.0
      •0•0•1•0•Updated Feb 13, 2026Feb 13, 2026

    • VBCS-1273

      Public
      This Repository houses the code used to analyze social distancing and activity assay data output by FlyFinder.
      GNU Affero General Public License v3.0
      •0•0•0•0•Updated Jan 27, 2026Jan 27, 2026

    • FlyFinder

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jan 27, 2026Jan 27, 2026

    • demultiplex

      Public
      Python
      •
      GNU General Public License v3.0
      •1•0•1•0•Updated Jan 20, 2026Jan 20, 2026

    • 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 …
      workflows
      workflows
      Python
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Dec 24, 2025Dec 24, 2025

    • Social_distancing_and_activity_analysis

      Public
      R code to analyze social distancing and activity analyses of drosophila. Current implementation utilizes control mutants to establish null intervals for use wit…
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 13, 2025Nov 13, 2025

    • Nauta_2025

      Public
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 28, 2025Oct 28, 2025

    • snakemake_template

      Public template
      instructional
      instructional
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 28, 2025Oct 28, 2025

    • bioinfo_workshop_2025

      Public
      instructional
      instructional
      Jupyter Notebook
      •0•3•0•0•Updated Oct 23, 2025Oct 23, 2025

    • nextflow_template

      Public template
      instructional
      instructional
      Nextflow
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 23, 2025Oct 23, 2025

    • Intro_to_Linux_for_HPC

      Public
      instructional
      instructional
      Euphoria
      •3•0•0•0•Updated Oct 3, 2025Oct 3, 2025

    • insitu_probe_generator

      Public
      Fork of https://github.com/rwnull/insitu_probe_generator.git v.0.3.2
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Sep 16, 2025Sep 16, 2025

    • EVITA_Analysis

      Public
      Analysis code pertaining to the EVI-2 manuscript titled "Oral vitamin C supplementation in patients with low-risk myeloid malignances and clonal cytopenia of un…
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jul 25, 2025Jul 25, 2025

    • VAI-BBC-genomics-randomization-pipeline

      Public
      workflows
      workflows
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 6, 2025May 6, 2025

    • LineageSwitch_Eiken_VBCS-1416

      Public
      A spot to share our code for the lineage switch meta analysis project!
      HTML
      •0•1•0•0•Updated Apr 17, 2025Apr 17, 2025

    • VBCS-1355

      Public
      HTML
      •0•0•0•0•Updated Apr 15, 2025Apr 15, 2025

    • gradient-metabolomics-VBCS-1384

      Public
      A shareable code space between Hannah Damico (VAI BBC) + Richard Cassidy (VAI Fondufe-Mittendorf Lab)
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Mar 7, 2025Mar 7, 2025

    • Ugcg-KO_proteomics_analysis

      Public
      Proteomics + Enrichment analysis code for comparing Ugcg-KO samples
      Other
      •0•0•0•0•Updated Feb 21, 2025Feb 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.
      Other
      •0•0•0•0•Updated Feb 21, 2025Feb 21, 2025
    ProTip! When viewing an organization's repositories, you can use the props. filter to filter by custom property.