modules/deeptools_plotpca

Generates principal component analysis (PCA) plot using a compressed matrix generated by multibamsummary or multibigwigsummary as input.

PCAmatrixbambigwig

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

Description

Generates principal component analysis (PCA) plot using a compressed matrix generated by multibamsummary or multibigwigsummary as input.

Input

name:type

description

pattern

`meta:map`

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

]

`matrix:file`

compressed matrix file produced by mutlibamsummary or multibigwigsummary

*.{npz}

Output

name:type

description

pattern

`pdf`

`meta:map`

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

]

`*.pdf:file`

Output figure containing resulting plot

*.{plotPCA.pdf}

`tab`

`meta:map`

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

]

`*.tab:file`

Tab file containing data used to generate the PCA plot

*.{plotPCA.tab}

`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_plotpca

Description

Input

meta:map

matrix:file

Output

pdf

meta:map

*.pdf:file

tab

meta:map

*.tab:file

versions

versions.yml:file

Tools

deeptools GPL v3

`meta:map`

`matrix:file`

`pdf`

`meta:map`

`*.pdf:file`

`tab`

`meta:map`

`*.tab:file`

`versions`

`versions.yml:file`

deeptools
GPL v3