Welcome to IGENT!
IGENT is an efficient algorithm for identifying genome-wide gene-gene interactions (GGI) and gene-environment interaction (GEI). IGENT supports two types of strategies to identify gene-gene interactions related with diseases in genome-wide scale. One is an exhaustive search approach for lower-order interactions such as 2nd order interaction, and the other is a stepwise selection approach for higher-order interaction. With tens of thousands of SNPs from thousands of samples, it is difficult to calculate higher-order interaction exhaustively because the computational burden is too heavy. IGENT provides a stepwise approach for higher-order interactions.
Manual
Run IGENT
igent --in [input file] --out [output file] --order [order]
ex) igent --in sample.txt --out result.csv --order 2
[Parameter]
- –in : input file path + name
- –out : result file path + name
- –order : combination order (1,2,3,4,…. or 1-3, 2-5) (default : 2)
- –mode : exhaustive search or stepwise search (exhaustive, stepwise) (default : exhaustive)
- –shuffling : shuffling (0 : not shuffling 1: shuffling) (default : 0)
Download GWAS-GMDR
Current version
IGENT is currently at Version 1.5 (04/19/2017)