ISOpureS1.model_optimize.opt_omega {ISOpureR}

Optimize omega in step 1

Description

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

Usage

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

Value

The model with the omega_weights and omega parameters updated

Author(s)

Gerald Quon, Catalina Anghel, Francis Nguyen