Oct 26, 2018

HLA*PRG:LA - HLA typing from linearly projected graph alignments

BioRxiv : the Preprint Server for Biology
Alexander T DiltheyAdam M. Phillippy

Abstract

Summary: HLA*PRG:LA implements a new graph alignment model for HLA type inference, based on the projection of linear alignments onto a variation graph. It enables accurate HLA type inference from whole-genome (99% accuracy) and whole-exome (93% accuracy) Illumina data; from long-read Oxford Nanopore and Pacific Biosciences data (98% accuracy for whole-genome and targeted data); and from genome assemblies. Computational requirements for a typical sample vary between 0.7 and 14 CPU hours per sample. Availability and Implementation: HLA*PRG:LA is implemented in C++ and Perl and freely available from https://github.com/DiltheyLab/HLA-PRG-LA (GPL v3). Contact: alexander.dilthey@med.uni-duesseldorf.de Supplementary information: Supplementary data are available online.

  • References
  • Citations

References

  • We're still populating references for this paper, please check back later.
  • References
  • Citations

Citations

  • This paper may not have been cited yet.

Mentioned in this Paper

Genome
Progesterone
HLA Antigens
Whole Exome Sequencing
Whole Genome Amplification
Cocaine
HLA Typing
SRGN gene
PRB3 gene
Precentral Gyrus

About this Paper

Related Feeds

BioRxiv & MedRxiv Preprints

BioRxiv and MedRxiv are the preprint servers for biology and health sciences respectively, operated by Cold Spring Harbor Laboratory. Here are the latest preprint articles (which are not peer-reviewed) from BioRxiv and MedRxiv.