PT  - JOURNAL ARTICLE
AU  - Leonid Rozenberg
AU  - Jeff Hammerbacher
TI  - Prohlatype: A Probabilistic Framework for HLA Typing
AID  - 10.1101/244962
DP  - 2018 Jan 01
TA  - bioRxiv
PG  - 244962
4099  - http://biorxiv.org/content/early/2018/01/10/244962.short
4100  - http://biorxiv.org/content/early/2018/01/10/244962.full
AB  - HLA typing from sequencing data is considered as a classical probabilistic inference problem and Profile Hidden Markov Models (PHMM) are motivated for the likelihood calculation. Their generative property makes them a natural and highly discernible method; at the cost of considerable computation. We discuss ways to ameliorate this burden, and present an implementation https://github.com/hammerlab/prohlatype.