Detection-of-epistasis-patterns-in-genetic-data.
Master2 project Bioinformatics, University of Nantes By Quentin Clayssen, Antoine Laine
Detection of epistasis patterns using Memetic algorithm and Path Relinking method
Initialisation of project
In order to compile the whole project a makefile is provided at project's root. This makefile will call each method's makefile and produce both executables. This makefile, can recreate directory structure if needed.
Compilation instruction
To recreate directory structure for both methods, please call this line at the root of the project:
make install
To compile both methods, please call this lines at the root of the project:
make
If a recompilation is needed please use to purge all compiled files:
make clean
Generate a naive data set
This project is provided with a tool to generate some naive data set. This tool fit with a logistic regression and produce a data set of given sizes with a given number of causal SNPs. This operation is performed by simu_naive.py.
./simu_naive.py -p simu_naive -f 1 -v 28 -pa 2000 -o toy_dataset -c 2000 -s 2