Protein Protein Interaction Python Packages

hbat

HBAT 2: A Python Package to analyse Hydrogen Bonds and Other Non-covalent Interactions in Macromolecular Structures https://hbat-web.abhishek-tiwari.com

arpeggia

Calculation of interatomic interactions in molecular structures

deeppurpose

A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)

uniprot-mcp-server

Auditable UniProt MCP server with per-response SHA-256 provenance, release pinning, verification, and offline replay.

duello

Osmotic second virial coefficient (𝐵₂) and dissociation constant (𝐾𝑑) for two rigid macromolecules

pyscorpion

Single Cell Oriented Reconstruction of PANDA-based Individually Optimized Networks

spada

⚔️ Find splicing-led, functional changes of the proteome.

biocentral

Biomedical data, from lab to paper.

contact-map

Contact map analysis for biomolecules; based on MDTraj

protify

Low code molecular property prediction

nease

A network-based approach for exon set enrichment

mmtfpyspark

Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.

pedl

Search the biomedical literature for protein interactions and protein associations

skempi-foldx

Precomputed FoldX binding ddG for SKEMPI 2.0 mutations, with the campaign pipeline that produced them

mdinteractions

MDInteractions: A python package for the distance-based analysis of intra- and inter-protein interactions.

deeprank

This repository has been integrated in https://github.com/DeepRank/deeprank2

ppi-origami

Tools for processing and analysing PPI datasets

ppi-net-builder

Protein-Protein Interaction (PPI) network construction and analysis in Python

foldrunner

All-vs-all protein structure-prediction panels with one alignment per sequence, for AlphaFold 3, Boltz-2, Protenix, Chai-1, ColabFold, AlphaFold2-Multimer, AlphaFold Server and SeedFold

splitpea

Splitpea Python package for building rewired protein-protein interaction networks from alternative splicing events

ymap

An automated method to map yeast variants to proteins modifications and functional regions

farseernmr

A software suite for automatic treatment, analysis and plotting of large and multivariable datasets of bioNMR peaklists.

acrcasppi-ml

Prediction of protein-protein interaction between anti-crispr protein (acr) and CRISPR-associated (cas) protein using machine learning algorithm

braid-mrf

Predict protein complexes from high-throughput data