Ploidy in WGS samples

Question

[loy_loy]

Hi everyone,

I am working with WGS cancer datasets. I downloaded the data as bam files from GDC TCGA. I want to know if there is a program to find out the ploidy of the samples.

Thank you!

Best

Lynn

Answer 1

[Zhenyu Zhang]

There are PanCan papers published a few years ago that contain ABSOLUTE analysis. You might want to just search for PanCan in the GDC publication pages. Ploidy data is probably in one of the attachment there.

Answer 2

[Thind amarinder]

may be you would like to try https://github.com/hartwigmedical/hmftools/blob/master/purple/README.md