Precision HLA typing from next-generation sequencing data using OptiType.

Table of Contents

Introduction

Quick Start

With Docker

With Singularity

Documentation

Pipeline DAG

Input fastq

Input bam

Credits

Introduction

OptiType is a HLA genotyping algorithm based on integer linear programming. Reads of whole exome/genome/transcriptome sequencing data are mapped against a reference of known MHC class I alleles. To produce accurate 4-digit HLA genotyping predictions, all major and minor HLA-I loci are

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