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The annotate-sample-data-amrfinderplus action currently only accepts contigs or MAGs as input. But The most accurate way to run amrfinderplus is to run it in a combined mode with MAGs and predicted genes together. For this the inputs for GenomeData[Proteins] and GenomeData[Loci] has to be added to the action. A user can then predict genes of their MAGs with predict-genes-prodigal of moshpit and then use those outputs to run annotate-sample-data-amrfinderplus.
The text was updated successfully, but these errors were encountered:
This is currently not possible because q2-amr is only compatible with qiime2 2024.2 and the action predict-genes-prodigal of moshpit 2024.2 only accepts FeatureData[MAG].
The
annotate-sample-data-amrfinderplus
action currently only accepts contigs or MAGs as input. But The most accurate way to run amrfinderplus is to run it in a combined mode with MAGs and predicted genes together. For this the inputs forGenomeData[Proteins]
andGenomeData[Loci]
has to be added to the action. A user can then predict genes of their MAGs withpredict-genes-prodigal
of moshpit and then use those outputs to runannotate-sample-data-amrfinderplus
.The text was updated successfully, but these errors were encountered: