Description

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

Input

name:type
description
pattern

meta{:bash}

:map

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

matrix{:bash}

:file

compressed matrix file produced by mutlibamsummary or multibigwigsummary

*.{npz}

Output

name:type
description
pattern

pdf{:bash}

meta{:bash}

:map

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

*.pdf{:bash}

:file

Output figure containing resulting plot

*.{plotPCA.pdf}

tab{:bash}

meta{:bash}

:map

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

*.tab{:bash}

:file

Tab file containing data used to generate the PCA plot

*.{plotPCA.tab}

versions{:bash}

versions.yml{:bash}

: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
included in
cutandrunsammyseq
maintainers
Github user tamara-hodgetts
Github user chris-cheshire
Github user joseespinosa
get in touch
Ask a question on Slack Open an issue on GitHub