ChIPseqPipe

Components of an automated ChIPseq, CUT&RUN, ATACseq or CUT&Tag pipeline: https://github.com/GryderLab/ChIPseqPipe/tree/master/FastChIP

ChIP-seq and CUT&RUN visualization toolbox

Bed Coverage Comparison between 2 ChIP-seq datasets

added by Berkley E. Gryder, December 2021

Scripts and code protocol for bedCovComp ChIP-seq or CUT&RUN data

https://github.com/GryderLab/ChIPseqPipe/tree/master/bedCovComp

Calculating RNA Pol2 Traveling Ratio

added by Berkley E. Gryder, March 2020

Scripts and code protocol for calculating Pause Index (aka Traveling Raio) from Pol2 ChIP-seq data https://github.com/GryderArt/ChIPseqPipe/tree/master/TravelingRatio

Plotting TSS heat maps

added by Berkley E. Gryder, Janurary 2021

Scripts, code protocol and video tutorial for plotting ChIP-seq data around gene sets of interest https://github.com/GryderArt/ChIPseqPipe/tree/master/plotTSSheat