New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Question: Virtual SNP array over individual germline calls? #9

Open

messersc opened this issue Apr 5, 2016 · 0 comments

messersc commented Apr 5, 2016

Dear maintainers,

I was wondering which sets of potential SNPs could and should be used with THetA2.
Of course, one can use the Virtual SNP array from http://compbio-research.cs.brown.edu/projects/theta/data/AffySNP6.0_hg19.txt.formatted. Alternatively, one can call germline SNVs on the normal samples and then use those as the SNP set.

Which one would you recommend? Would you imagine it makes a difference?

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment