RamsinghLab/atacseeker_app

Name: atacseeker_app

Owner: RamsinghLab

Description: Illumina BaseSpace ATACseq pipeline.

Created: 2015-06-23 22:41:12.0

Updated: 2017-04-04 22:36:52.0

Pushed: 2017-10-24 01:05:07.0

Homepage:

Size: 23784

Language: HTML

GitHub Committers

User	Most Recent Commit	# Commits
Tim Triche, Jr.	2015-06-27 20:55:54.0	3
Asif Zubair	2017-10-24 01:05:04.0	548

Other Committers

User	Email	Most Recent Commit	# Commits

README

ATACseeker App

This repository contains code for a Illumina BaseSpace Native App for doing ATACseq analysis.

requires:

• docker, pandoc, parallel
• bamaddrg, bedtools, bedGraphToBigWig, bwa, freeBayes, samblaster, samtools, vcftools, vcflib
• R
  • Bioconductor: csaw, edgeR, Gviz, Homo.sapiens, preseqR, Rsamtools, rtracklayer
  • CRAN: knitr, locfit, R2HTML, rjson, rmarkdown, statmod
  • Github: ATACseeker