Index

C

collate_training_data() (in module pica.io.io) compleconta_plot() (in module pica.util.plotting) CompleContaCV (class in pica.ml.cccv)

compress_vocabulary() (in module pica.ml.feature_select) crossvalidate() (pica.ml.trex_classifier.TrexClassifier method) crossvalidate_cc() (pica.ml.trex_classifier.TrexClassifier method) CustomVectorizer (class in pica.ml.vectorizer)

F

fit() (pica.transforms.resampling.TrainingRecordResampler method)

G

GenotypeRecord (class in pica.structure.records) get_feature_names() (pica.ml.vectorizer.CustomVectorizer method) get_feature_weights() (pica.ml.trex_classifier.TrexClassifier method) get_groups() (in module pica.util.helpers)

get_instance() (pica.ml.trex_classifier.TrexClassifier class method) get_logger() (in module pica.util.logging) get_resampled() (pica.transforms.resampling.TrainingRecordResampler method) get_x_y_tn() (in module pica.util.helpers) GroupRecord (class in pica.structure.records)

L

load_classifier() (in module pica.util.serialization) load_genotype_file() (in module pica.io.io)

load_groups_file() (in module pica.io.io) load_phenotype_file() (in module pica.io.io) load_training_files() (in module pica.io.io)

M

multiple_step_rfecv() (in module pica.ml.feature_select)

P

parameter_search() (pica.ml.trex_classifier.TrexClassifier method) PhenotypeRecord (class in pica.structure.records) pica (module) pica.io (module) pica.io.io (module) pica.ml (module) pica.ml.cccv (module) pica.ml.feature_select (module) pica.ml.trex_classifier (module) pica.ml.vectorizer (module)

pica.structure (module) pica.structure.records (module) pica.transforms (module) pica.transforms.resampling (module) pica.util (module) pica.util.helpers (module) pica.util.logging (module) pica.util.plotting (module) pica.util.serialization (module) predict() (pica.ml.trex_classifier.TrexClassifier method)

R

recursive_feature_elimination() (in module pica.ml.feature_select)

run() (pica.ml.cccv.CompleContaCV method)

S

save_classifier() (in module pica.util.serialization)

scoring_function_mapping (pica.ml.trex_classifier.TrexClassifier attribute)

T

train() (pica.ml.trex_classifier.TrexClassifier method) TrainingRecord (class in pica.structure.records)

TrainingRecordResampler (class in pica.transforms.resampling) TrexClassifier (class in pica.ml.trex_classifier)

W

write_cccv_accuracy_file() (in module pica.io.io)

write_misclassifications_file() (in module pica.io.io) write_weights_file() (in module pica.io.io)