Preprocessed reference genomes for use with ViralMSA, ViralWasm, etc. You can view all of the preprocessed reference genomes in this repository via the following web application:
https://niema-lab.github.io/Reference-Genomes/
Each reference genome was indexed as follows:
minimap2 -d REFERENCE_GENOME.FAS.MMI REFERENCE_GENOME.FASREFS.json: All reference genomes + names + shortnames