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

Add a project region for GP120 #486

Closed
3 tasks done
donkirkby opened this issue Nov 19, 2019 · 1 comment
Closed
3 tasks done

Add a project region for GP120 #486

donkirkby opened this issue Nov 19, 2019 · 1 comment
Assignees

Comments

@donkirkby
Copy link
Member

donkirkby commented Nov 19, 2019

It will overlap with V3LOOP, and it should have key positions inside the primers that Winnie recently used: HXB2 positions 6354-7651.

  • add project region and key positions
  • check if sort order needs to be tweaked on MiCall page in QAI
  • report reads as coverage in both V3LOOP and GP120
@donkirkby donkirkby added this to the 7.12 - De Novo Assembly milestone Nov 19, 2019
@donkirkby donkirkby changed the title Add a project region for GP41 Add a project region for GP120 Nov 19, 2019
@donkirkby
Copy link
Member Author

Change the coverage reports to use G2P alignment for V3LOOP, and mapped reads for GP120. Allow the reads aligned in G2P to go through the remapping step, so they can be counted twice.

@donkirkby donkirkby reopened this Dec 11, 2019
@donkirkby donkirkby self-assigned this Dec 11, 2019
donkirkby added a commit that referenced this issue Jan 8, 2020
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Projects
None yet
Development

No branches or pull requests

1 participant