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.

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

Add CLI tool to generate samplesheets #72

Draft
wants to merge 5 commits into
base: main
Choose a base branch
from

Conversation

KevinSayers
Copy link
Collaborator

@KevinSayers KevinSayers commented Oct 14, 2024

Issue #, if available:

Description of changes:
Add a tool for generating sample sheets (CSVs) from Sequence Stores.

  • Add tests
  • Add MinMaxMean option to generate a samplesheet to be used for optimization.
  • Add template so samplesheet formatting can be customized
  • Additional arguments to select readsets
  • Add to README
  • Filter on filetype
  • Filter on sequence size
  • Handle fastq readpairs
  • Filter on sequence size
  • Filter on filetype fastq/bam/cram
  • Validate S3 URIs

By submitting this pull request, I confirm that you can use, modify, copy, and redistribute this contribution, under the terms of your choice.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

2 participants