assess_cell_quality_SVM {cellity} | R Documentation |
Assess quality of a cell - SVM version
assess_cell_quality_SVM(training_set_features, training_set_labels, ensemble_param, test_set_features)
training_set_features |
A training set containing features (cells x features) for prediction |
training_set_labels |
Annotation of each individual cell if high or low quality (1 or 0 respectively) |
ensemble_param |
Dataframe of parameters for SVM |
test_set_features |
Dataset to predict containing features (cells x features) |
This function takes a traning set + annotation to predict a test set. It requires that hyper-parameters have been optimised.
Returns a dataframe indicating which cell is low or high quality (0 or 1 respectively)
data.frame with decision on quality of cells
data(param_mES_all) data(training_mES_features) data(training_mES_labels) data(mES1_features) data(mES1_labels) mES1_features_all <- mES1_features[[1]] training_mES_features_all <- training_mES_features[[1]] mES1_quality_SVM <- assess_cell_quality_SVM( training_mES_features_all, training_mES_labels[,2], param_mES_all, mES1_features_all)