Repositories list

• mirpy

  Public
  🐍 A python library and snippets for immune repertoire data analysis, based on @antigenomics lab in-house scripts

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •44 forks•55 stars•66 issues•00 pull requests•Updated May 4, 2026May 4, 2026

• vdjdb-web

  Public
  🛜 An interactive browser for the VDJdb database

  websitedatabaset-cell+ 3

  websitedatabaset-cellantigenhlaepitope

  TypeScript

  •

  Apache License 2.0

  •11 fork•1515 stars•1010 issues•33 pull requests•Updated May 2, 2026May 2, 2026

• vdjdb-motifs

  Public
  ⚙️ Motif inference for the VDJdb database

  R

  •00 forks•55 stars•00 issues•11 pull request•Updated May 1, 2026May 1, 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 Apr 28, 2026Apr 28, 2026

• vdjdb-db

  Public
  🗂️ Git-based TCR database storage & management. Submissions welcome!

  bioinformaticsdatabaseimmunology+ 2

  bioinformaticsdatabaseimmunologyt-cellantigen

  Python

  •

  GNU Affero General Public License v3.0

  •2828 forks•153153 stars•121121 issues•00 pull requests•Updated Apr 27, 2026Apr 27, 2026

• vdjtools2

  Public
  🛠️ VDJtools second generation

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Apr 16, 2026Apr 16, 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

• vdjmatch2

  Public
  ⚙️ Matching TCR repertoires and VDJdb

  C++

  •

  GNU General Public License v3.0

  •00 forks•44 stars•33 issues•00 pull requests•Updated Apr 9, 2026Apr 9, 2026

• vdjdb-db-validation

  Public
  📝 [Commentary] Infographics for VDJdb records validation

  HTML

  •

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Mar 12, 2026Mar 12, 2026

• public-epitope

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

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

• tcren-ms

  Public
  📝 [Paper] TCRen: predicting TCR-peptide recognition based on residue-level pairwise statistical potential

  Parrot

  •

  Other

  •44 forks•2424 stars•11 issue•11 pull request•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

• vdjmatch

  Public
  [Deprectated, use vdjmatch2 instead] ⚙️ Matching T-cell repertoire against a database of TCR antigen specificities

  bioinformaticst-cellantigen+ 2

  bioinformaticst-cellantigenrep-seqvdjdb

  Groovy

  •

  Other

  •77 forks•3939 stars•77 issues•00 pull requests•Updated Feb 23, 2026Feb 23, 2026

• tcrenc

  Public
  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

• antigenomics.github.io

  Public
  🌐 Immuno Sequencing Algorithms Group web page

  JavaScript

  •

  Creative Commons Attribution 4.0 International

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 22, 2024Jul 22, 2024

• 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
  🕸️ 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
  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

  •44 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

• repertoire-embedding

  Public archive
  Analyzing network structure of the known TCR-cognate epitope map

  Jupyter Notebook

  •

  Apache License 2.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 28, 2023Feb 28, 2023

• bioinf-cov-classifier

  Public archive
  Classifying the status of COVID samples and SARS-CoV2-specific TCRs

  Jupyter Notebook

  •00 forks•11 star•00 issues•00 pull requests•Updated Jun 1, 2021Jun 1, 2021

• vdjsight

  Public
  [under development] Next-generation immunome browser

  TypeScript

  •00 forks•33 stars•00 issues•1414 pull requests•Updated May 10, 2021May 10, 2021

• tcr-survival-model

  Public
  T-cell sampling and survival model for HSCT and similar T-cell repertoire dynamics studies

  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 10, 2021Feb 10, 2021