ISOpureS1.model_optimize.opt_omega function

Optimize omega in step 1

This function optimizes omega, in fact the convex mixing weights that govern prior over the reference cancer profile.

ISOpureS1.model_optimize.opt_omega(
        tumordata, 
        model, 
        NUM_ITERATIONS_RMINIMIZE, 
        iter, 
        NUM_GRID_SEARCH_ITERATIONS
        )

Arguments

• tumordata: a GxD matrix representing gene expression profiles of tumour samples
• model: list containing all the parameters to be optimized
• NUM_ITERATIONS_RMINIMIZE: minimum number of iteration that the minimization algorithm runs
• iter: the iteration number
• NUM_GRID_SEARCH_ITERATIONS: number of times to try restarting with different initial values

Returns

The model with the omega_weights and omega parameters updated

Author(s)

Gerald Quon, Catalina Anghel, Francis Nguyen