Skip to content
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

Consider replacing ADMF with AF in find-snvs output #183

Open
timothymillar opened this issue May 14, 2024 · 0 comments
Open

Consider replacing ADMF with AF in find-snvs output #183

timothymillar opened this issue May 14, 2024 · 0 comments
Labels
vcf format

Comments

@timothymillar
Copy link
Collaborator

From the spec AF is

Allele frequency for each ALT allele in the same order as listed (estimated from primary data, not called genotypes)

So, it should be ok to calculate this as the mean of means as we are for ADMF and then drop the reference allele.
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
vcf format
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
1 participant
@timothymillar