Interaction-Network BIonformatics ToolboX (inbix) for machine learning and epistasis network analysis for high-dimensional data, including GWAS, microarray, RNA-Seq, eQTL, and others. inbix is a free, open-source, command-line bioinformatics tool, written in C++ and designed to perform a range of large-scale analyses with computational efficiency. The inbix program integrates many different analyses developed by the McKinney Insilico Lab for Bioinformatics and Computational Biology at the University of Tulsa.
Documentation and Tutorials: inbix website
Download and Install: GitHub
Inbix includes Relief-based and evaporative cooling-based algorithms for feature selection for detecting main effects and interaction effects for case-control and quantitative trait data. Inbix also allows epistasis and expression-epistasis network inference for GWAS and gene expression data; epistasis network centrality analysis; differential co-expression network analysis; interaction QTL (iQTL) network inference and differential-coexpression Variant (dcVar) analysis of eQTL data.
inbix is built upon the PLINK project developed by Shaun Purcell at the Center for Human Genetic Research (CHGR), Massachusetts General Hospital (MGH), and the Broad Institute of Harvard & MIT, with the support of others.