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

Supplementary alignments #122

Closed

mbhall88 opened this issue Feb 21, 2018 · 1 comment

Labels

mbhall88 commented

I know this can sometimes be dangerous ground to go to but I have a fairly straight forward question:

When minimap2 flags something as a supplementary alignment, are you saying it's chimeric or that it maps to two places on the reference? Or possibly both?

The text was updated successfully, but these errors were encountered:

lh3 added the question label

Owner

lh3 commented

Supplementary (SAM 0x800) = chimeric
Secondary (SAM 0x100) = multiple mappings

lh3 closed this as completed

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