[Feature]: Add ability to use files as a reference genome #44
Description
Summary
Allow using FASTA files as reference genomes.
Added Features
Additional Changed parameters
If a file is passed to the --genome parameter or referenced from an entry in the --genome_list, then use it as a genome. The parameter should be of the form FILE:CHROMOSOME.
More Info
Context
This would make it easier to use YAVSAP on more exotic viruses that might not have GenBank entries, or to flesh out less complete GenBank records.