In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq format as input, uses a bowtie index comprising all HLA alleles and outputs the most likely HLA class I and class II genotypes (in 4 digit resolution), a p-value for each call, and the expression of each class.
I'd like to update the bioconda recipe for seq2hla for version 2.3.
https://github.com/bioconda/bioconda-recipes/tree/master/recipes/seq2hla
Bioconda recommends downloading from a release. https://bioconda.github.io/contributor/guidelines.html#stable-urls