Adding new Reference genomes to the DeepVariant deep learning-based variant caller

Please add new Reference genomes to the DeepVariant deep learning-based variant caller:

Mycobacterium tuberculosis
Pseudomonas aeruginosa
Klebsiella pneumonia
Acinetobacter baumannii
E. coli
Pneumococcus
SARS-CoV-2

Thank you

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Hi @player_777

This tool accepts a reference genome fasta file from the history using the custom genome function. If you plan on incorporating reference annotation ( gtf or gff3 ), be sure to get that at the same time and prep the files to avoid tool errors.

Prior Q&A topics with instructions for the how-to and expected data formats. I also added some tags to this topic that find even more related topics! (sort by “Latest Posts”).

Hope that helps :slight_smile: