homer_groseq

Basic process of trying to analyze GRO-Seq data with HOMER. From the GRO-Seq Analysis Tutorial.

homergroseqnascent

https://github.com/nf-core/modules/[...]/subworkflows/nf-core/homer_groseq

Description

Basic process of trying to analyze GRO-Seq data with HOMER. From the GRO-Seq Analysis Tutorial.

Input

name

description

pattern

`bam`

list of BAM files, also able to take SAM and BED as input

[ *.{bam/sam/bed} ]

`fasta`

The reference fasta file

*.fasta

`uniqmap`

Optional HOMER uniqmap

*.zip

Output

name

description

pattern

`tagdir`

The “Tag Directory”

*_tagdir

`bed_graph`

The UCSC bed graph

*.bedGraph.gz

`peaks`

The found peaks

*.peaks.txt

`bed`

A BED file of the found peaks

*.bed

`versions`

File containing software versions

versions.yml