Drabme is an acronym for Drug Response Analysis to Boolean Model Ensembles. This module performs a combinatorial drug response analysis using the boolean models generated by Gitsbe in order to evaluate and identify the synergistic drug combinations.
For a full documentation of this package check here.
First, install gitsbe. Then:
git clone https://github.com/druglogics/drabme.git
cd drabme
mvn clean install
The above command creates a package <name>-jar-with-dependencies.jar file with all dependencies installed, in the target directory.
Alternatively, you could just use directly one of the released packages.
The recommended way to run Drabme is to use its Launcher.
From the root directory of the repo run: (remember to change the {version} to the
appropriate one, e.g. 1.2.0):
cd example_run_ags
java -cp ../target/drabme-{version}-jar-with-dependencies.jar eu.druglogics.drabme.Launcher --project=test --modelsDir=models --drugs=toy_ags_drugpanel.tab --perturbations=toy_ags_perturbations.tab --config=toy_ags_config.tab --modeloutputs=toy_ags_modeloutputs.tab
or run the mvn profile directly:
mvn compile -P runExampleAGS