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.

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

fixed edge case where SomaticValidator counts reads ending inside ref as alts #5326

Closed
wants to merge 1 commit into from

Conversation

davidbenjamin
Copy link
Contributor

Closes #5325.

@takutosato Here's another little one to fix an apparent MC3 false negative that's actually a true negative (and a false positive for several other callers).

@davidbenjamin
Copy link
Contributor Author

Actually, this is best dealt with upstream in the bamout. My mistake.

@davidbenjamin davidbenjamin deleted the db_choose_allele branch October 25, 2018 14:30
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Projects
None yet
Development

Successfully merging this pull request may close these issues.

GATKProtectedVariantContextUtils.chooseAlleleForRead mishandles read ends
2 participants