Repositories list

• tcren

  Public
  Predicting TCR:pMHC binding from structural data

  bindingpdbstructure+ 8

  bindingpdbstructuret-cellantigenmhctcrhlareceptoraffinity+ 1

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •55 forks•2727 stars•00 issues•00 pull requests•Updated Aug 18, 2026Aug 18, 2026

• mhcmatch

  Public
  Ultrafast MHC binding prediction. Immunogenicity scorer. Matching peptides and their mimics under MHC restriction

  presentationmhchla+ 5

  presentationmhchlaaffinitymimicneoantigenepitopeimmunogenicity

  Python

  •

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Aug 18, 2026Aug 18, 2026

• vdjmatch

  Public
  Matching T-cell receptor repertoires to a database of antigen specificities

  bioinformaticsspecificityt-cell+ 3

  bioinformaticsspecificityt-cellantigenrep-seqvdjdb

  Python

  •

  GNU General Public License v3.0

  •77 forks•3939 stars•77 issues•00 pull requests•Updated Aug 17, 2026Aug 17, 2026

• vdjtools

  Public
  Analysis of immune repertoire sequencing results

  bioinformaticsstatimmunology+ 5

  bioinformaticsstatimmunologyrepertoiret-cellantibodyt-cell-receptorrep-seq

  Python

  •

  GNU General Public License v3.0

  •4242 forks•145145 stars•00 issues•00 pull requests•Updated Aug 16, 2026Aug 16, 2026

• seqtree

  Public
  Efficiently search and cluster highly similar short sequences

  maptreetrie+ 3

  maptreetrieproteinsequencenucleotide

  Python

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 16, 2026Aug 16, 2026

• arda

  Public
  High-throughput mapping and domain partitioning of antigen receptor sequences

  bioinformaticsngssequencing+ 5

  bioinformaticsngssequencingimmunologyt-cellantibodyt-cell-receptorrep-seq

  Python

  •

  GNU General Public License v3.0

  •2020 forks•5656 stars•00 issues•00 pull requests•Updated Aug 15, 2026Aug 15, 2026

• migec

  Public
  An UMI-tagged sequencing swiss-knife

  rna-seqbarcodemutation+ 5

  rna-seqbarcodemutationantibodyumisingle-cellexome-sequencingairr

  C++

  •

  GNU General Public License v3.0

  •1919 forks•4343 stars•11 issue•00 pull requests•Updated Aug 15, 2026Aug 15, 2026

• irrm-codec

  Public
  🎞️ Immune Receptor Rearrangement Model-based enCOder DECoder (IRRM-CODEC)

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •33 forks•11 star•00 issues•33 pull requests•Updated Aug 14, 2026Aug 14, 2026

• mirpy

  Public
  Machine learning for Immune Repertoires

  machine-learningdeep-learningsequencing+ 8

  machine-learningdeep-learningsequencingt-cellantibodytcradaptiveembeddingimmunebcr+ 1

  Python

  •

  GNU General Public License v3.0

  •44 forks•77 stars•00 issues•00 pull requests•Updated Aug 14, 2026Aug 14, 2026

• vdjdb-web

  Public
  An interactive browser for the VDJdb database

  websitedatabaset-cell+ 3

  websitedatabaset-cellantigenhlaepitope

  TypeScript

  •

  GNU Affero General Public License v3.0

  •11 fork•1616 stars•00 issues•44 pull requests•Updated Aug 11, 2026Aug 11, 2026

• redcea

  Public
  ⚙️ Repertoire Embedding, Denoising, Clustering and Enrichment Analysis (REDCEA)

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Jul 8, 2026Jul 8, 2026

• vdjdb-motifs

  Public
  ⚙️ Motif inference for the VDJdb database

  Jupyter Notebook

  •00 forks•66 stars•00 issues•00 pull requests•Updated Jul 6, 2026Jul 6, 2026

• vdjmatch2

  Public archive
  ⚙️ [UNDER DEVELOPMENT] Matching TCR repertoires and VDJdb

  C++

  •

  GNU General Public License v3.0

  •00 forks•66 stars•44 issues•00 pull requests•Updated Jun 22, 2026Jun 22, 2026

• vdjdb-db

  Public
  Git-based antigen specificity database storage & management.

  bioinformaticsdatabaserecognition+ 7

  bioinformaticsdatabaserecognitionbindingimmunologyt-cellantigenmhchlareceptor

  Python

  •

  GNU Affero General Public License v3.0

  •2828 forks•155155 stars•124124 issues•00 pull requests•Updated Jun 11, 2026Jun 11, 2026

• antigenomics.github.io

  Public
  Documentation and workflows for ISALGO tools

  00 forks•00 stars•00 issues•00 pull requests•Updated Jun 8, 2026Jun 8, 2026

• tcremp

  Public
  ⚙️ T-cell receptor sequence embedding via prototypes

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •11 fork•66 stars•22 issues•00 pull requests•Updated Apr 16, 2026Apr 16, 2026

• public-epitope

  Public
  📝 [Paper] Exploring the landscape of specific TCR precursor frequencies

  22 forks•22 stars•00 issues•00 pull requests•Updated Mar 6, 2026Mar 6, 2026

• hla-go-ms

  Public
  📝 [Paper] HLA ligandome and parent protein Gene Ontology associations

  00 forks•11 star•11 issue•00 pull requests•Updated Mar 6, 2026Mar 6, 2026

• tcrenc

  Public archive
  TCR sequence (auto)encoders

  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 11, 2026Feb 11, 2026

• tcr-covid-classifier

  Public
  📝 [Paper] TCR motifs associated with infectious conditions and HLAs

  Jupyter Notebook

  •00 forks•22 stars•00 issues•00 pull requests•Updated Nov 17, 2025Nov 17, 2025

• tcr-annotation-methodology

  Public
  📝 [Paper/Tutorial] T-cell repertoire annotation and motif discovery

  TeX

  •

  Other

  •44 forks•1414 stars•33 issues•00 pull requests•Updated Sep 15, 2025Sep 15, 2025

• vdjtrack

  Public
  📝 Detecting T-cell expansion and quantifying clone survival from deep profiling of immune repertoires

  TeX

  •

  Apache License 2.0

  •00 forks•22 stars•00 issues•00 pull requests•Updated Feb 29, 2024Feb 29, 2024

• pyigmap-old

  Public archive
  A smart wrapper for V(D)J mapping software

  Python

  •

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Jan 31, 2024Jan 31, 2024

• vdjdb-structures

  Public archive
  🕸️ Template-based modelling of TCR:pMHC structures for VDJdb database

  HTML

  •

  Apache License 2.0

  •11 fork•11 star•00 issues•00 pull requests•Updated Jul 14, 2023Jul 14, 2023

• tcr-thymic-selection

  Public archive
  Network properties of public TCRs

  Jupyter Notebook

  •00 forks•11 star•00 issues•00 pull requests•Updated Jul 1, 2023Jul 1, 2023

• mir

  Public archive
  ⚙️ A toolset to handle immunogenomics data: from V/J references to AIRR-seq and TCR:pMHC structures.

  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 11, 2023Apr 11, 2023

• milib

  Public archive
  ⚙️ (internal) Milib library

  Java

  •

  Apache License 2.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 9, 2023Apr 9, 2023

• milib_unused

  Public archive
  MiLib: yet another Java library for Next Generation Sequencing (NGS) data processing

  Java

  •

  Apache License 2.0

  •22 forks•00 stars•00 issues•00 pull requests•Updated Apr 9, 2023Apr 9, 2023

• repseqio

  Public archive
  Utils for manipulations with RepSeq data. First step: utils to build V/D/J/C references.

  Java

  •

  Apache License 2.0

  •33 forks•00 stars•00 issues•00 pull requests•Updated Mar 7, 2023Mar 7, 2023

• vdjdb-structure-tmp

  Public archive
  Visualization of known and modeled structures from VDJdb using contact maps

  Jupyter Notebook

  •

  Apache License 2.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 1, 2023Mar 1, 2023