diff options
| author | Christoph Helma <helma@in-silico.ch> | 2016-06-02 19:01:18 +0200 |
|---|---|---|
| committer | Christoph Helma <helma@in-silico.ch> | 2016-06-02 19:01:18 +0200 |
| commit | 128fd36b2531756c15a93776871e80eb44e524f1 (patch) | |
| tree | ead8f7b83c825d0df8c857866b8d5686d7082927 /test | |
| parent | eec5bddbd35c9ecee8021128508d8718bccb4fe3 (diff) | |
proteomics regression validation
Diffstat (limited to 'test')
| -rw-r--r-- | test/nanoparticles.rb | 4 |
1 files changed, 2 insertions, 2 deletions
diff --git a/test/nanoparticles.rb b/test/nanoparticles.rb index 227f7db..e5d1973 100644 --- a/test/nanoparticles.rb +++ b/test/nanoparticles.rb @@ -54,7 +54,7 @@ class NanoparticleTest < MiniTest::Test #feature = Feature.find_or_create_by(name: "Net cell association", category: "TOX", unit: "mL/ug(Mg)") feature = Feature.find_or_create_by(name: "Log2 transformed", category: "TOX") - model = Model::LazarRegression.create(feature, training_dataset, {:prediction_algorithm => "OpenTox::Algorithm::Regression.local_weighted_average", :neighbor_algorithm => "physchem_neighbors", :neighbor_algorithm_parameters => {:min_sim => 0.5}}) + model = Model::LazarRegression.create(feature, training_dataset, {:prediction_algorithm => "OpenTox::Algorithm::Regression.local_weighted_average", :feature_selection_algorithm => :correlation_filter, :neighbor_algorithm => "physchem_neighbors", :neighbor_algorithm_parameters => {:min_sim => 0.5}}) cv = RegressionCrossValidation.create model p cv.rmse p cv.r_squared @@ -67,7 +67,7 @@ class NanoparticleTest < MiniTest::Test training_dataset = Dataset.find_or_create_by(:name => "Protein Corona Fingerprinting Predicts the Cellular Interaction of Gold and Silver Nanoparticles") feature = Feature.find_or_create_by(name: "Log2 transformed", category: "TOX") - model = Model::LazarRegression.create(feature, training_dataset, {:prediction_algorithm => "OpenTox::Algorithm::Regression.local_physchem_regression", :neighbor_algorithm => "physchem_neighbors", :neighbor_algorithm_parameters => {:min_sim => 0.5}}) + model = Model::LazarRegression.create(feature, training_dataset, {:prediction_algorithm => "OpenTox::Algorithm::Regression.local_physchem_regression", :feature_selection_algorithm => :correlation_filter, :neighbor_algorithm => "physchem_neighbors", :neighbor_algorithm_parameters => {:min_sim => 0.5}}) cv = RegressionCrossValidation.create model p cv.rmse p cv.r_squared |