Description

gcCounter function from HMMcopy utilities, used to generate GC content in non-overlapping windows from a fasta reference

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

fasta:file

Input genome fasta file

Output

name:type
description
pattern

wig

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

*.wig:file

wig file containing gc content of each window of the genome

*.wig

versions

versions.yml:file

File containing software versions

versions.yml

Tools

hmmcopy
GPL v3

C++ based programs for analyzing BAM files and preparing read counts -- used with bioconductor-hmmcopy

github.com/shahcompbio/hmmcopy_utils
maintainers
Github user sppearce
Github user adamrtalbot
get in touch
Ask a question on Slack Open an issue on GitHub