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

suggestion: use samtools view --uncompressed before piping in bamtools_filter #346

Open
lindenb opened this issue Jan 26, 2024 · 0 comments
Open

suggestion: use samtools view --uncompressed before piping in bamtools_filter #346

lindenb opened this issue Jan 26, 2024 · 0 comments
Labels
enhancement New feature or request

Comments

@lindenb
Copy link

lindenb commented Jan 26, 2024

Description of the bug

Not really a bug, but I think, if bamtools_filter could be sighlty faster if samtools view was called with --uncompressed instead of -b.

atacseq/modules/local/bamtools_filter.nf

Line 32 in 867f60d

-b $bam \\

I'm too lazy to test :-P

Command used and terminal output

N/A

Relevant files

N/A

System information

No response
@lindenb lindenb added the enhancement New feature or request label Jan 26, 2024
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
enhancement New feature or request
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
1 participant
@lindenb