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    86 repositories

    • Oncogenomics_NF_WF

      Public
      Nextflow
      •1•0•0•0•Updated Jan 31, 2025Jan 31, 2025

    • CHAMPAGNE

      Public
      CHromAtin iMmuno PrecipitAtion sequencinG aNalysis pipEline
      Nextflow
      •
      MIT License
      •2•0•0•0•Updated Jan 22, 2025Jan 22, 2025

    • ASPEN

      Public
      CCBR pipeline for preliminary QC and peak calling from ATACseq datasets
      Shell
      •
      MIT License
      •2•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • spacesavers2

      Public
      Python
      •1•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • XAVIER

      Public
      An easy-to-use, flexible variant calling pipeline for use on the Biowulf cluster at NIH
      Python
      •
      MIT License
      •3•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • RENEE

      Public
      A comprehensive quality-control and quantification RNA-seq pipeline
      Python
      •
      MIT License
      •4•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • CRISPIN

      Public
      Crispr scReen seqUencIng analySis pipEline
      Nextflow
      •
      MIT License
      •3•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • MAAPster

      Public
      MAAPster is a comprehensive tool to perform transcriptome analysis of human or mouse Affymetrix gene expression data
      R
      •
      MIT License
      •6•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • TRANQUIL

      Public
      TRANQUIL (TRna AbundaNce QUantification pIpeLine)
      Shell
      •
      MIT License
      •1•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • MAPLE

      Public
      Python
      •
      MIT License
      •1•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • ASCENT

      Public
      rMATs and IsoformSwitchAnalyeR workflow for multi-group multi-contrasts scenarios
      Python
      •
      MIT License
      •2•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • l2p

      Public
      List to pathway, or l2p, is an R package for gene set enrichment analysis that is optimized for speed.
      C
      •
      MIT License
      •2•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • CCBR_circRNA_AmpliconSeq

      Public
      Snakemake workflow to process circRNA AmpliconSeq datasets generated to study circRNAs in KSHV and human hosts using divergent primers.
      Shell
      •
      MIT License
      •1•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • CARLISLE

      Public
      Cut And Run Analysis Pipeline
      Python
      •
      MIT License
      •4•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • Dockers

      Public
      A collection of Dockerfiles to facilitate reproducibility across computing environments.
      Dockerfile
      •3•0•0•0•Updated Dec 4, 2024Dec 4, 2024

    • CCBR_NextflowTemplate

      Public template
      CCBR template for Nextflow workflows
      Nextflow
      •
      MIT License
      •1•0•0•0•Updated Nov 26, 2024Nov 26, 2024

    • SF_LR_scRNA

      Public
      R
      •1•0•0•0•Updated Nov 5, 2024Nov 5, 2024

    • SF_Downstream_RNA-seq

      Public
      RNA-Seq Downstream Differential Gene Expression and Gene Set Enrichment Analysis
      R
      •
      MIT License
      •1•0•0•0•Updated Oct 23, 2024Oct 23, 2024

    • abcsFrederick.github.io

      Public
      This is the repo for the official abcsFrederick IO webpage.
      0•0•0•0•Updated Oct 22, 2024Oct 22, 2024

    • bss-tracker

      Public
      JavaScript
      •1•0•0•2•Updated Oct 16, 2024Oct 16, 2024

    • LOGAN

      Public
      Nextflow
      •
      MIT License
      •4•0•0•0•Updated Aug 17, 2024Aug 17, 2024

    • iCLIP_V3

      Public
      Stable release for iCLIP V3
      Nextflow
      •1•0•0•0•Updated Jul 31, 2024Jul 31, 2024

    • NCI-RBL-Dockers

      Public
      A repository of recipes for Docker containers built for the NCI-RBL
      C
      •2•0•0•0•Updated Jul 19, 2024Jul 19, 2024

    • CCBR_SnakemakeTemplate

      Public template
      Barebones framework for creating new snakemake workflows.
      Shell
      •
      MIT License
      •1•0•0•0•Updated Jul 17, 2024Jul 17, 2024

    • METRO

      Public
      Mouse nEoanTigen pRedictOr
      Python
      •
      MIT License
      •2•0•0•0•Updated Jul 17, 2024Jul 17, 2024

    • POB_snMultiome_pipeline

      Public
      This is the repo for snMultiome pipeline
      R
      •
      MIT License
      •1•0•0•0•Updated Jul 10, 2024Jul 10, 2024

    • fruitsc

      Public
      Snakemake pipeline for analysis of Hi-C data
      Shell
      •
      MIT License
      •1•0•0•0•Updated Jun 26, 2024Jun 26, 2024

    • Archive

      Public
      Python
      •0•0•0•1•Updated Jun 18, 2024Jun 18, 2024

    • SF_LR_VAP

      Public
      SF Long Read Variant Analysis pipeline
      Python
      •
      MIT License
      •1•0•0•0•Updated May 13, 2024May 13, 2024

    • SF_LR_Transcriptome

      Public
      Long read transcriptome pipeline for Pacbio and ONT
      Python
      •
      MIT License
      •1•0•0•0•Updated May 13, 2024May 13, 2024