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

Modernisation progress for pipeline #103

Open
markziemann opened this issue Nov 13, 2024 · 0 comments
Open

Modernisation progress for pipeline #103

markziemann opened this issue Nov 13, 2024 · 0 comments

Comments

@markziemann
Copy link
Owner

markziemann commented Nov 13, 2024 •
edited
Loading

Currently testing the new pipeline. TODO:

  • Return results to user's working directory when providing fastq files or accessions
  • More testing of organisms and larger jobs
  • Add new genome assembly/annotations --> Ensure proper treatment of cDNA for STAR and kallisto see Number of mouse transcripts in annotation #49
  • Update the docker image (remember fastq pairer perl script)
  • Whitelist working MD5sum
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
@markziemann