Description

mapCounter function from HMMcopy utilities, used to generate mappability in non-overlapping windows from a bigwig file

Input

name:type
description
pattern

meta{:bash}

:map

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

bigwig{:bash}

:file

BigWig file with the mappability score of the genome, for instance made with generateMap function.

*.wig

Output

name:type
description
pattern

wig{:bash}

meta{:bash}

:map

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

*.wig{:bash}

:file

wig file containing mappability of each window of the genome

*.wig

versions_hmmcopy{:bash}

${task.process}{:bash}

:string

The name of the process

hmmcopy{:bash}

:string

The name of the tool

echo 0.1.1{:bash}

:eval

The expression to obtain the version of the tool

Topics

name:type
description
pattern

versions{:bash}

${task.process}{:bash}

:string

The name of the process

hmmcopy{:bash}

:string

The name of the tool

echo 0.1.1{:bash}

:eval

The expression to obtain the version of the tool

Tools

hmmcopy
GPL v3

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

github.com/shahcompbio/hmmcopy_utils
maintainer
Github user sppearce
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