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epi2me-labs / wf-metagenomics

Metagenomic classification of long-read sequencing data
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AMR databases #120

Closed rs-norman closed 1 month ago

rs-norman commented 2 months ago

Ask away!

Do the AMR databases used in the wf-metagenomics workflow need to be downloaded manually or are they part of the workflow install? I am not seeing any AMR databases in the epi2me workflow folders.

nggvs commented 2 months ago

Hi @rs-norman , the amr databases are included in the docker image for abricate so they are used when running the workflow, so you are not expected to see them in the workflow folder. Thank you very much for using the pipeline!