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

immuno-compass

Generalizable AI predicts immunotherapy outcomes across cancers and treatments

tidytcells

Standardise TR/MH/IG data

immunedb

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

copepodtcr

COmbinatorial PEptide POoling for TCR specificity

aims-immune

A software for the analysis of immune repertoires

stitchr

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

epitopepredict

Python package and command line tool for epitope prediction

decombinator

Decombinator: fast, error-correcting analysis of TCR repertoires

vquest

Automate IMGT V-QUEST usage on imgt.org

sceptr

Highly informative TCR representation model

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.