ccbr Goto Github PK

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actions

GitHub Actions for CCBR repos

ascent

rMATs and IsoformSwitchAnalyeR workflow for multi-group multi-contrasts scenarios

aspen

CCBR pipeline for preliminary QC and peak calling from ATACseq datasets

bioinfo-pf-curie-chip-seq

Nextflow pipeline for ChIP-seq data quality controls and analysis

biowulf_usage

Monitor biowulf usage

btep_microbiome_2022

BTEP Microbiome Class 2022

build-renee-refs

Build genome references for RENEE

carlisle

Cut And Run Analysis Pipeline

ccbr-1144

ccbr-commons

ccbr1238

ccbr1245_ramaswami_ncounter

ccbr1271_ervpipeline

ERV pipeline based of scripts from NCI Yasmine Belkaid Lab

ccbr_circrna_ampliconseq

Snakemake workflow to process circRNA AmpliconSeq datasets generated to study circRNAs in KSHV and human hosts using divergent primers.

ccbr_nextflowtemplate

CCBR template for Nextflow workflows

ccbr_snakemaketemplate

Barebones framework for creating new snakemake workflows.

ccbr_tobias

Tobias implementation for ATAC seq data.

cel2vcf

Adaptation of existing tools to convert SNPArray CEL files to VCF

champagne

CHromAtin iMmuno PrecipitAtion sequencinG aNalysis pipEline

charlie

Circrnas in Host And viRuses anaLysis pIpEline for Detection Annotation Quantification of circRNAs

chromvar

chromatin Variability Across Regions (of the genome!)

clusterprofiler

A repository for sharing the renv envrionment information to use the R package/tool Cluster Profiler, as well as example code from CCBR projects that have used the tool

cptr-9-weigert-dsp-analysis

cptr_5_dsp_krug

cptr_6_dsp_annunziata

crispin

CRISPR screen pipeline

crispr-tools

crisprannotation

crisprseq_screens