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

get_geneids.py should fallback to existing IDs if 'nice' ID discovery fails #47

Open
pansapiens opened this issue Mar 7, 2019 · 0 comments
Open

get_geneids.py should fallback to existing IDs if 'nice' ID discovery fails #47

pansapiens opened this issue Mar 7, 2019 · 0 comments

Comments

@pansapiens
Copy link
Contributor

To prevent generation of empty *Counts-withNames.txt files, get_geneids.py should fallback to using whatever IDs are in the featureCounts CSV if the script fails to extract the the 'nice' IDs from the GTF/GFF. This way we always get a Degust-compatible counts file even if it doesn't have ideal transcript/gene names.
@pansapiens pansapiens changed the title get_geneids.py should fallback to existing IDs if ID discovery fails get_geneids.py should fallback to existing IDs if 'nice' ID discovery fails Mar 7, 2019
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
@pansapiens