nf-core / nf-core/pathogensurveillance
Handle biosamples that are assocaited with assemblies instead of reads
Open
Nobody has claimed this yet.
- Dominant language
- Nextflow
- Stars
- 61
- Forks
- 8
- Avg merge
- 2d 6h
- Merged PRs (30d)
- 1
Description
This is relevant once #114 has been done.
An example is "SAMN02603297"
There are also "collections" of assemblies like "SAMEA2272622"
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by reviewing the work in issue #114 and how the pipeline currently handles the example biosample SAMN02603297. Investigate support for biosamples associated with assemblies rather than reads, including assembly collections such as SAMEA2272622. Done means these biosample forms are handled correctly after #114 is complete.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 35/100