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

Add chimeric alignments to STAR #144

Open
iskandr opened this issue Aug 9, 2019 · 0 comments
Open

Add chimeric alignments to STAR #144

iskandr opened this issue Aug 9, 2019 · 0 comments

Comments

@iskandr
Copy link
Contributor

iskandr commented Aug 9, 2019

Since Manta does not do realignment on RNA it relies on STAR to do chimeric alignments.

We need to add --chimSegmentMin 30 to the STAR alignment parameters (requiring each part of a fusion to be at least 30bp long)
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
1 participant
@iskandr