Skip to content

Update test data #135

@FerriolCalvet

Description

@FerriolCalvet

By looking at nf-core/fastquorum test datasets, I believe we could use those to also test deepUMIcaller

https://github.com/nf-core/fastquorum/blob/master/tests/pipeline/multi_fastq.nf.test
https://github.com/nf-core/test-datasets/tree/fastquorum/testdata/fastqs

We could either point directly to the two cases that are already uploaded to their pipeline repo, or we can set up some other way to get some files available via URL that could be provided directly as input for Nextflow.

Here is a list of cases that could be used for the testing:
https://www.ncbi.nlm.nih.gov/sra?term=SRP119013

(we could decide to also use one of these to test deepCSA downstream, but first we should check the number of mutations of some of these cases to make sure that it is a good testing scenario)

Metadata

Metadata

Labels

No labels
No labels

Type

No type

Projects

No projects

Relationships

None yet

Development

No branches or pull requests

Issue actions