This is a repo that takes Immune Epitope Database and Analysis Resource "IEDB" data for a set of viruses, and maps it to their reference strain nucleotide position.
the blast cli's in your path base R
go to https://www.iedb.org/ Download some data for your favourite virus (or anything I guess) , name it | species |.csv Pop the genome fasta of the reference genome in ./ref/| species |.fasta Run Rscript main.R | species |
a iedb database with reference start and reference end nucleotide positions will appear
todo optional
- make getting data automatic