Description

Visualises sample correlations 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}

method (value)

Correlation coefficient to use for heatmap or scatterplot generation

{spearman,pearson}

plot_type (value)

Type of output plot to display sample correlation

{heatmap,scatterplot}

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

*.{plotCorrelation.pdf}

matrix (file)

Tab-separated file containing a matrix of pairwise correlations

*.{plotCorrelation.mat.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