RLOBICO
R implementation of logic optimization for binary input to continuous output
Description: Applies LOBICO model to large and complex datasets, formulates the
logic mapping as an integer linear programming problem (ILP), and uses the
advanced ILP solvers (IBM ILOG Cplex) to find the optimal mapping. The package
is developed using R and C++, where the logic mapping formulation and Cplex
Solver are implemented as separate files by C++ for performance gain and R
functions are used as wrappers to call the C++ functions in the package. The
speed performance of our open source package is optimized by tuning relevant
parameters of Cplex Solver, which leads to better performance than the
standard Matlab package
Citation
Wail Ba-Alawi, Sisira Kadambat Nair, Bo Li, Anthony Mammoliti, Petr Smirnov, Arvind Singh Mer, Linda Z. Penn, Benjamin Haibe-Kains; Bimodal Gene Expression in Patients with Cancer Provides Interpretable Biomarkers for Drug Sensitivity. Cancer Res 1 July 2022; 82 (13): 2378–2387.