output_file = "./results.txt"
alpha, beta = 1., 1.
lambdaF = 1./10.
lambdaS = 1./10.
lambdaG = 1./10.
priors = { 'alpha':alpha, 'beta':beta, 'lambdaF':lambdaF, 'lambdaS':lambdaS, 'lambdaG':lambdaG }
# Load in the CCLE IC50 dataset
R,M = load_ccle(ic50=True)
# Run the cross-validation framework
#random.seed(42)
#numpy.random.seed(9000)
nested_crossval = GreedySearchCrossValidation(
classifier=bnmtf_vb_optimised,
R=R,
M=M,
values_K=K_range,
values_L=L_range,
folds=no_folds,
priors=priors,
init_S=init_S,
init_FG=init_FG,
iterations=iterations,
restarts=restarts,
quality_metric=quality_metric,
file_performance=output_file
)
nested_crossval.run()
lambdaS = 1. / 10.
lambdaG = 1. / 10.
priors = {
'alpha': alpha,
'beta': beta,
'lambdaF': lambdaF,
'lambdaS': lambdaS,
'lambdaG': lambdaG
}
# Load in the CCLE EC50 dataset
R, M = load_ccle(ic50=False)
# Run the cross-validation framework
#random.seed(1)
#numpy.random.seed(1)
nested_crossval = GreedySearchCrossValidation(classifier=bnmtf_gibbs_optimised,
R=R,
M=M,
values_K=K_range,
values_L=L_range,
folds=no_folds,
priors=priors,
init_S=init_S,
init_FG=init_FG,
iterations=iterations,
restarts=restarts,
quality_metric=quality_metric,
file_performance=output_file)
nested_crossval.run(burn_in=burn_in, thinning=thinning)
priors = {
'alpha': alpha,
'beta': beta,
'lambdaF': lambdaF,
'lambdaS': lambdaS,
'lambdaG': lambdaG
}
minimum_TN = 0.01
# Load in the CCLE IC50 dataset
R, M = load_ccle(ic50=True)
# Run the cross-validation framework
#random.seed(1)
#numpy.random.seed(1)
nested_crossval = GreedySearchCrossValidation(classifier=nmtf_icm,
R=R,
M=M,
values_K=K_range,
values_L=L_range,
folds=no_folds,
priors=priors,
init_S=init_S,
init_FG=init_FG,
iterations=iterations,
restarts=restarts,
quality_metric=quality_metric,
file_performance=output_file)
nested_crossval.run(minimum_TN=minimum_TN)