Marker file for GISTIC 2 as CN data called by VarScan2

Question

[Feng Xie]

Hi all,

I'd like to find the recurrent SCNAs across a set of tumor samples using GISTIC 2. Segment file and marker file are required to run GISTIC 2. As my segment file is generated by VarScan 2 using exome sequencing data, I don't know how to generate the corresponding marker file.

Could someone tell me how to generate the marker file for GISTIC 2?

Thank you very much.