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

Reduce temporary file usage in the contaminant removal step #24

Open
mattheww95 opened this issue Feb 7, 2024 · 0 comments
Open

Reduce temporary file usage in the contaminant removal step #24

mattheww95 opened this issue Feb 7, 2024 · 0 comments
Labels
enhancement New feature or request

Comments

@mattheww95
Copy link
Collaborator

Description of feature

As recommended by @apetkau :

  • pipe the output of minimap2 into samtools fastq to avoid one of the intermeidate files

  • output a compressed fastq from samtools fastq directly
@mattheww95 mattheww95 added the enhancement New feature or request label Feb 7, 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
@mattheww95