Description

Generates principal component analysis (PCA) plot using a compressed matrix generated by mutlibamsummary 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

meta (map)

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

]

pdf (file)

Output figure containing resulting plot

*.{plotPCA.pdf}

tab (file)

Tab file containing data used to generate the PCA plot

*.{plotPCA.tab}

versions (file)

File containing software versions

versions.yml
included in
cutandrun
maintainers
Github user tamara-hodgetts
Github user chris-cheshire
get in touch
Ask a question on Slack Open an issue on GitHub

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