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bioc2017

bioc2018_workshop

biocworkshops

Workshops for learning Bioconductor

cedarsbiogithw

A homework folder for Cedars compbio students

chip-seq-pipeline2

ENCODE ChIP-seq pipeline

chipseq_pipeline

AQUAS TF and histone ChIP-seq pipeline

deeptools

Tools to process and analyze deep sequencing data.

dotfiles-for-lab

elmer

Enhancer Linking by Methylation/Expression Relationship (ELMER) is package to identify tumor-specific changes in DNA methylation within distal enhancers, and link these enhancers to downstream target genes

funcivar

hgg_2020

Course materials for the Human Genetics and Genomics bioinformatics course, Spring 2020

idr

IDR

marx

The classless CSS reset (perfect for Communists).

motifbreakr

A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.

multiqc

Aggregate results from bioinformatics analyses across many samples into a single report.

nucleoatacr

R package for reading in & working with NucleoATAC outputs

phaser

phasing and Allele Specific Expression from RNA-seq

seurat-wrappers

Community-provided extensions to Seurat

sircel

Identify cell barcodes from single-cell genomics sequencing experiments

statehub

A repository for storing chromatin state definition tables to paint the genome with functional annotation

statehubweb

statepaintr

umis

Tools for processing UMI RNA-tag data

workflows

Community maintained workflows & tools (with examples)