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

]

fasta (file)

Input genome fasta file

Output

Name (Type)
Description
Pattern

meta (map)

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

]

versions (file)

File containing software versions

versions.yml

wig (file)

wig file containing gc content of each window of the genome

*.wig
maintainers
Github user sppearce
Github user adamrtalbot
get in touch
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Tools

hmmcopy
GPL v3

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

github.com/shahcompbio/hmmcopy_utils