HISAT-genotype's database for human genes

Format:

1. contains directory with gene family name, with msf and fasta subdirectories

2. msf and fasta subdirectories contain multiple sequence alignment and fasta files respectively; each file refers to one gene and includes alignment and sequence information for each allele included, file formatting follows IMGTHLA database: https://github.com/ANHIG/IMGTHLA

Currently included genes families:

1. CYP family – compiled summer 2016 by Raymon Cao (https://github.com/rcao5), scripts and data files used can be found here

References:

[1] Sim SC et al.: The Human Cytochrome P450 (CYP) Allele Nomenclature Database (link)

[2] Kim D, Langmead B, and Salzberg SL: HISAT: a fast spliced aligner with low memory requirements, Nature methods, 2015