Description

Plot Freec output

Input

name:type
description
pattern

meta:map

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

]

ratio:file

ratio file generated by FREEC

*.ratio.txt

baf:file

.BAF file generated by FREEC

*.BAF

ploidy:integer

Ploidy value for which graph should be created

Output

name:type
description
pattern

png_baf

meta:map

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

]

*_BAF.png:file

Image of BAF plot

*_BAF.png

png_ratio_log2

meta:map

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

]

*_ratio.log2.png:file

Image of ratio log2 plot

*_ratio.log2.png

png_ratio

meta:map

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

]

*_ratio.png:file

Image of ratio plot

*_ratio.png

versions

versions.yml:file

File containing software versions

versions.yml

Tools

controlfreec
GPL >=2

Copy number and genotype annotation from whole genome and whole exome sequencing data.

http://boevalab.inf.ethz.ch/FREEC http://boevalab.inf.ethz.ch/FREEC/tutorial https://github.com/BoevaLab/FREEC/ 10.1093/bioinformatics/btq635
maintainer
Github user FriederikeHanssen
get in touch
Ask a question on Slack Open an issue on GitHub