We've moved!
This site is now read-only. You can find our new documentation site and support forum for posting questions here.
Be sure to read our welcome blog!

Is there any "pre copy number" value in the processing?

Dear Genome STRiP users,

I completed the SVCNVDiscovery process to a certain cohort, and also calculate the copy number by other software such as Lumpy. But when I compare these two copy number results, I found some samples with weird copy number values.

samples lumpy CN GS CN
sample1 3.05128 2
sample2 2.64587 2
sample3 2.56714 3
sample4 1.84659 1

It is hard to figure out the conversion between the continuous CN from lumpy to the discrete CN from GS. I am wondering if in Genome STRiP, it also generate continuous CNs and then discretize them to the final discrete value. If so, where can I get the "pre" value of the final discrete CNs or can I output this kind of "pre" value? Thank you very much.

Best regards,
Minzhi

Best Answer

Answers

  • Hi @bhandsaker ,

    Thank you very much, and these variables are really helpful, especially CNF.

    Best regards,
    Wusheng

Sign In or Register to comment.