genomic-medicine-sweden / taxprofiler

Taxonomic profiling of shotgun metagenomic data
https://nf-co.re/taxprofiler
MIT License
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Test dataset for Centrifuge, Kaiju and MetaMaps when running the pipeline with -profile test #8

Closed sofstam closed 1 year ago

sofstam commented 2 years ago

Feature

We need to update the test dataset for taxprofiler so that -profile test can be run successfully.

What needs to be done

Update the test dataset for Centrifuge, Kaiju and MetaMaps. This is similar to: https://github.com/nf-core/test-datasets/pull/477

This can be closed when:

talnor commented 2 years ago

What should be included in the test databases?

For a minimal database -profile test: Use the same species as for kraken2 + SARS-CoV-2 (MetaMaps, Kaiju)