p_thres {scAnnotatR} | R Documentation |
Returns the probability threshold for the given classifier.
p_thres(classifier) ## S4 replacement method for signature 'scAnnotatR' p_thres(classifier) <- value
classifier |
scAnnotatR object. The object is returned from the train_classifier function. |
value |
the new threshold |
Predicting probability threshold of object
scAnnotatR object with the new threshold.
data("tirosh_mel80_example") selected_marker_genes_B = c("CD19", "MS4A1", "CD79A") set.seed(123) classifier_b <- train_classifier(train_obj = tirosh_mel80_example, assay = 'RNA', slot = 'counts', marker_genes = selected_marker_genes_B, cell_type = "B cells", tag_slot = 'active.ident') p_thres(classifier_b) data("tirosh_mel80_example") selected_marker_genes_B = c("CD19", "MS4A1", "CD79A") set.seed(123) classifier_b <- train_classifier(train_obj = tirosh_mel80_example, assay = 'RNA', slot = 'counts', marker_genes = selected_marker_genes_B, cell_type = "B cells", tag_slot = 'active.ident') classifier_b_test <- test_classifier(classifier = classifier_b, test_obj = tirosh_mel80_example, assay = 'RNA', slot = 'counts', tag_slot = 'active.ident') # assign a new threhold probability for prediction p_thres(classifier_b) <- 0.4