Immunoinformatics Python Packages

lzgraphs

Alignment-free graph models of TCR and BCR repertoires built from Lempel-Ziv and FlashBack string decompositions. Compute sequence generation probability (Pgen) and repertoire diversity, and generate new sequences. Python with a C core.

genairr

Fast simulator of BCR and TCR sequences with full ground-truth annotations: V(D)J recombination, somatic hypermutation and sequencing artifacts across 23 species. Rust core with a Python API, for training and benchmarking AIRR-seq tools.

tidytcells

Standardise TR/MH/IG data

iptkl

A pythonic library for analysing immunopeptidomic experiments

alignair

Deep-learning V(D)J aligner for BCR and TCR sequences. A single model predicts V/D/J allele calls, segment boundaries and the junction, with AIRR-format output. Published in Nucleic Acids Research (2025).

setriq

Fast string distance computation in Python

sceptr

Highly informative TCR representation model

algpred2

A machine learning based method for predicting, scanning and mapping allergenic regions in an allergen

protpeptigram

Visualization of Immunopeptides Mapped to Source Proteins Across Multiple Samples

ifnepitope2

Prediction of interferon-gamma inducing peptides using alignment-based and alignment-free methods

clbtope

An ensemble method for predicting linear and conformational B-cell epitope

pygempick

Open Source python module to enable batch gold particle picking, filtering, processing & statistical modelling of TEM images produced by IGEM (immunogold electron microscopy).

pybatman

Bayesian inference of Activation of TCR by Mutant Antigens

ablanx

JAX/Flax port of AbLang2's AbRep encoder: differentiable antibody language-model embeddings and per-block attention, loading the original weights unchanged.

il5pred

Machine learning based method for predicting and scanning IL-5 inducing petides

mhc-tp

Peptides motif search tool and Source protein mappers

il13pred

A method for predicting cytokine IL-13 inducing peptides

il6pred

In silico model for predicting of Interleukin-6 inducing peptides