modules/deeptools_multibamsummary

Computes read coverage for genomic regions (bins) across the entire genome.

bamcoveragegenomebin

https://github.com/nf-core/modules/[...]/modules/nf-core/deeptools/multibamsummary

Description

Computes read coverage for genomic regions (bins) across the entire genome.

Input

name:type

description

pattern

`meta:map`

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

]

`bams:file`

One or more BAM files

*.{bam}

`bais:file`

Corresponding BAM file indexes

*.bam.bai

`labels:string`

User specified labels instead of default labels (file names).

Output

name:type

description

pattern

`matrix`

`meta:map`

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

]

`*.npz:file`

compressed numpy array of read coverage data used by plotCorrelation and plotPCA deeptool utilities

all_bam.bamSummary.npz

`versions`

`versions.yml:file`

File containing software versions

versions.yml

Tools

deeptools
GPL v3

A set of user-friendly tools for normalization and visualization of deep-sequencing data

deeptools.readthedocs.io/en/develop https://github.com/deeptools/deepTools 10.1093/nar/gku365

modules/deeptools_multibamsummary

Description

Input

`meta:map`

`bams:file`

`bais:file`

`labels:string`

Output

`matrix`

`meta:map`

`*.npz:file`

`versions`

`versions.yml:file`

Tools

deeptools
GPL v3

included in

maintainers

get in touch

modules/deeptools_multibamsummary

Description

Input

meta:map

bams:file

bais:file

labels:string

Output

matrix

meta:map

*.npz:file

versions

versions.yml:file

Tools

deeptools GPL v3

included in

maintainers

get in touch

`meta:map`

`bams:file`

`bais:file`

`labels:string`

`matrix`

`meta:map`

`*.npz:file`

`versions`

`versions.yml:file`

deeptools
GPL v3