hla-typing

There are 2 repositories under hla-typing topic.

• awesome-vdj

  slowkow / awesome-vdj

  📚 Tools and databases for analyzing HLA and VDJ genes.

  bioinformaticsimmunologyantibodyt-cell-receptorhla-databasehla-typingb-cell-receptorawesome-listhlabcrtcrvdj
  189

• humanlongevity / HLA

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

  hla-typingsequencinggenomicsvariantsvariant-calling
  Language:Jupyter Notebook 97

• nf-core / hlatyping

  Precision HLA typing from next-generation sequencing data

  hlahla-typingimmunologydnarnaoptitypepersonalized-medicinenf-corenextflowworkflowpipeline
  Language:Nextflow 52

• Kingsford-Group / kourami

  Kourami: Graph-guided assembly for HLA alleles

  hla-databaseimgthlahla-typingsequence-searchwgs
  Language:Java 35

• deepomicslab / SpecHLA

  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.

  hla-typinghaplotypelohhla-sequencenanoporepacbio-dataphasecancerlocal-assemblyreads-binningallelic-imbalancegenotype-frequencyloss-of-heterozygosityimmunityhuman-leukocyte-antigens
  Language:C++ 25
• hifihla

  PacificBiosciences / hifihla

  An HLA star-calling tool for PacBio HiFi data types

  dnahifihlahla-typingimgtimmunologypacbiosequencing
  19

• OpenOmics / genome-seek

  Clinical Whole Genome and Exome Sequencing Pipeline

  copy-number-variationgermline-variantsquality-controlstructural-variantssingularitysnakemakewhole-genome-sequencingsomatic-variantspipelinehla-typingvariant-annotationvariant-effect-predictionwhole-exome-sequencing
  Language:Python 16

• BGI-flexlab / SOAPTyping

  HLA typing for Sanger Based Test

  hlahla-typingsanger-sequencingsbt
  Language:C++ 13

• NCBI-Hackathons / HLAClustRView

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

  hla-typingrpackagemetricsvisualizationclusteringbioinformaticsbioinformatics-tooldata-science
  Language:R 12

• linnil1 / HLA_collections

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

  hla-typingnext-generation-sequencinghlabioinformaticstools
  Language:Python 8

• Chelysheva / RNA2HLA

  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.

  quality-controlrna-seqhla-typing
  Language:Python 6

• nmdp-bioinformatics / seq-ann

  Python package for doing fast and accurate sequence annotation

  bioinformaticsgfehlahla-typingngssequence-analysis
  Language:Python 5

• pyc1216 / hlaloh-pipeline

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

  snakemake-workflowdocker-imagehla-typing
  Language:R 5

• TRON-Bioinformatics / tronflow-hla-hd

  A Nextflow workflow for HLA typing using HLA-HD

  bioinformaticshla-typing
  Language:Nextflow 4

• cvisb / cvisb_data

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

  biologysystems-biologysystemsbiologyviral-genomicsviral-metagenomicsviral-alleleviral-diversityviral-ngsebolaebola-outbreaklassalassa-feverhlahla-typinghla-databaseimmunologyimmunological-bioinformaticssequencingngs-data
  Language:TypeScript 3

• dyohanne / HLAXPress

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

  allele-specific-expressionhlahla-typing
  Language:R 3

• BiomedicalSciences / learning-git

  gitgithubhla-typingngs-analysis
  Language:HTML 2

• cobinet / HLA_lli

  HLA typing pipelines in nextflow

  hla-typingnextflow-pipelines
  Language:Nextflow 2

• nmdp-bioinformatics / hla-reporting-ig

  FHIR Implementation Guide for HLA reporting

  fhirfhir-ighlahla-typing
  Language:HTML 2

• adeschen / docker-arcasHLA

  Docker image for arcasHLA software

  hlahla-typingdocker-imagehla-database
  Language:Dockerfile 1

• adeschen / HLAClustRView

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

  rpackageclusteringhla-typingmetricvisualizationbioinformaticsbioinformatics-tooldata-science
  Language:R 1

• oicr-gsi / hlaminer

  wrapper workflow for BCGSC tool HLAminer

  tumor-immunogenicityhla-typing
  Language:WDL 1

• nmdp-bioinformatics / pyHML

  Python package for working with HML

  hlahmlhla-typing
  Language:Python

• oicr-gsi / hlavbseq

  workflow wraps HLA-VBSeq, a tool for estimating the most prevalent HLA types in a sample

  immunitytumorhla-typing
  Language:WDL

• pbashyal-nmdp / py-ard

  HLA ARD reduction in Python

  hlahla-databasehla-typing
  Language:Python