README.md

ARACNE-multicore

• src/ARACNE.src.tar.gz -> Source code of ARACNe2.
• parallel -> Python middleware scripts for run ARACNe2 on a platform multicore.
• launch -> Dirctory to run ARACNe2 multicore.

Pre-requisites

• python 3
• pandas
• multiprocessing
• functools
• os, sys

(Optional) Installing miniconda as bioconda

bash install-miniconda.sh

01 - Compiling ARACNe2

bash compile-aracne.sh

02 - Running ARACNe2 Multicore

Copy matrix gene expression into directory launch:

bash run.sh norm-Stage1.tsv &> salida &

For run multiple tsvs:

for i in $(ls *.tsv); do bash run.sh $i; done > salida &