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

Even more better base-level alignments when surjecting long reads #4371

Merged
merged 4 commits into from
Aug 11, 2024
Merged

Even more better base-level alignments when surjecting long reads #4371

merged 4 commits into from
Aug 11, 2024

Conversation

jeizenga
Copy link
Contributor

@jeizenga jeizenga commented Aug 9, 2024 •
edited
Loading

Changelog Entry

No new change log required.

Description

To correct variant calling errors we've identified:

  • Loosens the criteria to identify sequences as low complexity
  • Uses dynamic band padding for the banded alignment in surject
  • Switches to a more reliable (and cleaner) method for strand-independent left alignment
  • Fixes a bug in reference sequence extraction when checking for low-complexity anchors

@jeizenga jeizenga merged commit 10d0f96 into master Aug 11, 2024
2 checks passed
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Reviewers
No reviews
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

Successfully merging this pull request may close these issues.
2 participants
@jeizenga @adamnovak