Use Sequenza output to run GISTIC2

From Sequenza output, there are following 13 columns, I am wondering which one I should use for GISTIC2 to calculate Set.CN?

"chromosome" "start.pos" "end.pos" "Bf" "N.BAF" "sd.BAF" "depth.ratio" "N.ratio" "sd.ratio" "CNt" "A" "B" "LPP"

sequencing

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updated 6.2 years ago by Thind amarinder

• written 7.7 years ago by qxiong1 •

1 answer

It is worth taking a look into this post

http://crazyhottommy.blogspot.com/2017/11/run-gistic2-with-sequenza-segmentation.html

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written 6.2 years ago by Thind amarinder

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