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    • Tobias implementation for ATAC seq data.
      Python
      MIT License
      1120Updated Oct 31, 2024Oct 31, 2024
    • HowTos

      Public
      How To Guides on various data management and other CCBR-related tasks.
      1030Updated Oct 30, 2024Oct 30, 2024
    • parkit

      Public
      Park folders or tarballs into HPCDME 🚙
      Python
      MIT License
      0020Updated Oct 30, 2024Oct 30, 2024
    • Dockers

      Public
      A collection of Dockerfiles to facilitate reproducibility across computing environments.
      Dockerfile
      31120Updated Oct 30, 2024Oct 30, 2024
    • CHARLIE

      Public
      Circrnas in Host And viRuses anaLysis pIpEline for Detection Annotation Quantification of circRNAs
      Python
      MIT License
      12151Updated Oct 28, 2024Oct 28, 2024
    • .github

      Public
      organizations readme
      Python
      0000Updated Oct 27, 2024Oct 27, 2024
    • RENEE

      Public
      A comprehensive quality-control and quantification RNA-seq pipeline
      Python
      MIT License
      43190Updated Oct 25, 2024Oct 25, 2024
    • LOGAN

      Public
      Nextflow
      MIT License
      41180Updated Oct 24, 2024Oct 24, 2024
    • a repo for testing and toying with nextflow & gh actions
      Python
      MIT License
      0030Updated Oct 23, 2024Oct 23, 2024
    • R package for downstream multi-omics analysis
      R
      Other
      01320Updated Oct 22, 2024Oct 22, 2024
    • R
      0000Updated Oct 18, 2024Oct 18, 2024
    • CRISPIN

      Public
      CRISPR screen pipeline
      Nextflow
      MIT License
      30121Updated Oct 16, 2024Oct 16, 2024
    • CARLISLE

      Public
      Cut And Run Analysis Pipeline
      Python
      MIT License
      44120Updated Oct 14, 2024Oct 14, 2024
    • Tools

      Public
      Utilities for CCBR Bioinformatics Software ⚒️
      Python
      MIT License
      4180Updated Oct 10, 2024Oct 10, 2024
    • R
      0000Updated Oct 8, 2024Oct 8, 2024
    • actions

      Public
      🤖 GitHub Actions for CCBR repos
      Python
      MIT License
      0050Updated Oct 8, 2024Oct 8, 2024
    • XAVIER

      Public
      An easy-to-use, flexible variant calling pipeline for use on the Biowulf cluster at NIH
      Python
      MIT License
      3170Updated Oct 3, 2024Oct 3, 2024
    • CHAMPAGNE

      Public
      CHromAtin iMmuno PrecipitAtion sequencinG aNalysis pipEline
      Nextflow
      MIT License
      20510Updated Oct 1, 2024Oct 1, 2024
    • Python
      1040Updated Oct 1, 2024Oct 1, 2024
    • CCBR_NextflowTemplate

      Public template
      CCBR template for Nextflow workflows
      Nextflow
      MIT License
      1290Updated Sep 13, 2024Sep 13, 2024
    • ASPEN

      Public
      CCBR pipeline for preliminary QC and peak calling from ATACseq datasets 🌲
      Shell
      MIT License
      2040Updated Sep 13, 2024Sep 13, 2024
    • A repository for general information and analysis templates for Nanostring's Digital Spatial Profiling
      HTML
      0020Updated Sep 10, 2024Sep 10, 2024
    • l2ptest

      Public
      l2p testing
      C
      0000Updated Aug 30, 2024Aug 30, 2024
    • l2p

      Public
      List to pathway, or l2p, is an R package for gene set enrichment analysis that is optimized for speed.
      C
      MIT License
      2000Updated Aug 23, 2024Aug 23, 2024
    • CCBR_SnakemakeTemplate

      Public template
      Barebones framework for creating new snakemake workflows.
      Shell
      MIT License
      1310Updated Aug 20, 2024Aug 20, 2024
    • Build genome references for RENEE
      Python
      MIT License
      0000Updated Aug 6, 2024Aug 6, 2024
    • R
      0000Updated Aug 5, 2024Aug 5, 2024
    • HTML
      1000Updated Jul 31, 2024Jul 31, 2024
    • HTML
      1000Updated Jul 24, 2024Jul 24, 2024
    • Reusable modules and subworkflows for CCBR nextflow pipelines
      Nextflow
      MIT License
      00101Updated Jul 16, 2024Jul 16, 2024