EAModules

A package for modules identification using evolutionary algorithms.

Code structure

• EAModules: core functions of evolutionary algorithms for module identification.
  • functions: core functions of evolutionary algorithms including SA, GA and MA.
  • utils: utilities for supporting core functions like connected component finding and fitness.
  • R: R code of genetic algorithm, modified from COSINE package.
• data: benchmark and real-world data.
• examples: example scripts to call functions, including supplementary files used in the paper.

To construct PPI network, check another package https://github.com/fairmiracle/PPINet.

Reference

Active module identification in intracellular networks using a memetic algorithm with a new binary decoding scheme. BMC Genomics 2017 18(Suppl 2):209. Link

For any questions, please contact Dong Li at dxl466@cs.bham.ac.uk.