Immunology Python Packages

flowio

A Python library for reading and writing Flow Cytometry Standard (FCS) files

flowkit

A Python toolkit for flow cytometry analysis supporting GatingML and FlowJo workspaces

lzgraphs

LZ76 Graphs and Applications in Immunology

deeptcr

Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data

arda-mapper

High-throughput mapping and domain partitioning of antigen receptor sequences

tidytcells

Standardise TR/MH/IG data

immuno-compass

Generalizable AI predicts immunotherapy outcomes across cancers and treatments

aims-immune

A software for the analysis of immune repertoires

immunedb

A system for the analysis and exploration of high-throughput adaptive immune receptor sequencing data

copepodtcr

COmbinatorial PEptide POoling for TCR specificity

epitopepredict

Python package and command line tool for epitope prediction

stitchr

Stitchr - a Python script to stitch together coding TCR nucleotide sequences from V, J, and CDR3 info

sceptr

Highly informative TCR representation model

decombinator

A fast and efficient tool for the analysis of T-cell receptor repertoire sequences produced by deep sequencing.

mhc-tp

Peptides motif search tool and Source protein mappers

vquest

Automate IMGT V-QUEST usage on imgt.org

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

Package for predicting peptide mutation effects on T cell receptor activation.