📚 Tools and databases for analyzing HLA and VDJ genes.

xHLA: Fast and accurate HLA typing from short read sequence data

Precision HLA typing from next-generation sequencing data

SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, and -DRB1 genes. Also, it supports both short- and long-read data.

Kourami: Graph-guided assembly for HLA alleles

An HLA star-calling tool for PacBio HiFi data types

Clinical Whole Genome and Exome Sequencing Pipeline

HLA typing for Sanger Based Test

R package specialized in HLA typing clustering and visualization based on specific similarity metrics

A script to run HLA typing tools from next generation sequencing data

A Nextflow workflow for HLA typing using HLA-HD

RNA2HLA is a QC tool performing study-wide HLA typing for RNA-seq data (paired on single-end) and thereby identifying the samples from the common source.

hla-typing by optitype & polysolver , detect loh by lohhla.

Python package for doing fast and accurate sequence annotation

Data portal and API for Center for Viral Systems Biology (CViSB) data

HLAXPress performs estimation of allele-specific expression levels for HLA genes using UMIs.

FHIR Implementation Guide for HLA reporting

HLA typing pipelines in nextflow

R package specialized in HLA typing clustering and visualization based on specific similarity metrics.