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

Create a Nextflow workflow to create custom databases #14

Closed
4 tasks done
ypriverol opened this issue May 23, 2019 · 0 comments · Fixed by #31
Closed
4 tasks done

Create a Nextflow workflow to create custom databases #14

ypriverol opened this issue May 23, 2019 · 0 comments · Fixed by #31
Assignees
@ypriverol @husensofteng
Milestone
Custom database s...

Comments

@ypriverol
Copy link
Member

ypriverol commented May 23, 2019 •
edited
Loading

We would like to have a nextflow workflow the parameters will define which custom database will be added:

Parameters:

  • Taxonomy (mandatory)
  • Include (lncRNA, sncRNA, ..): We basically need to expose in the workflow the parameter --include_biotypes
  • Include cancer mutations.
  • Tissue (This can be used in combination with the previous parameter).
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees

@ypriverol ypriverol

@husensofteng husensofteng

Labels
None yet
Projects
None yet
Milestone
Custom database service for proteoGen...
Development

Successfully merging a pull request may close this issue.

handle the stop codons, COSMIC errors download, ENSEMBL releases bigbio/py-pgatk
2 participants
@ypriverol @husensofteng