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

meta (map)

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

]

versions (file)

File containing software versions

versions.yml

png_baf (file)

Image of BAF plot

*_BAF.png

png_ratio_log2 (file)

Image of ratio log2 plot

*_ratio.log2.png

png_ratio (file)

Image of ratio plot

*_ratio.png
maintainer
Github user FriederikeHanssen
get in touch
Ask a question on Slack Open an issue on GitHub

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