Index

_

__eq__() (aigarmic.Plate method) (aigarmic.plate.Plate method) __ge__() (aigarmic.Plate method) (aigarmic.plate.Plate method) __gt__() (aigarmic.Plate method) (aigarmic.plate.Plate method) __hash__() (aigarmic.Plate method) (aigarmic.plate.Plate method) __le__() (aigarmic.Plate method) (aigarmic.plate.Plate method)

__lt__() (aigarmic.Plate method) (aigarmic.plate.Plate method) __ne__() (aigarmic.Plate method) (aigarmic.plate.Plate method) __repr__() (aigarmic.Plate method) (aigarmic.plate.Plate method) (aigarmic.plate.PlateSet method) (aigarmic.PlateSet method)

A

add_growth_code_matrix() (aigarmic.Plate method) (aigarmic.plate.Plate method) aigarmic module aigarmic.file_handlers module aigarmic.model module

aigarmic.plate module aigarmic.process_plate_image module aigarmic.train module annotate_images() (aigarmic.Plate method) (aigarmic.plate.Plate method)

B

BinaryModel (class in aigarmic) (class in aigarmic.model)

BinaryNestedModel (class in aigarmic) (class in aigarmic.model)

C

calculate_mic() (aigarmic.plate.PlateSet method) (aigarmic.PlateSet method) convert_cv2_to_keras() (in module aigarmic) (in module aigarmic.file_handlers) (in module aigarmic.model) convert_growth_codes() (aigarmic.Plate method) (aigarmic.plate.Plate method)

convert_mic_matrix() (aigarmic.plate.PlateSet method) (aigarmic.PlateSet method) create_dataset_from_directory() (in module aigarmic) (in module aigarmic.file_handlers) (in module aigarmic.train)

F

find_threshold_value() (in module aigarmic) (in module aigarmic.process_plate_image)

G

generate_qc() (aigarmic.plate.PlateSet method) (aigarmic.PlateSet method) get_all_plates() (aigarmic.plate.PlateSet method) (aigarmic.PlateSet method) get_colony_image() (aigarmic.Plate method) (aigarmic.plate.Plate method) get_concentration_from_path() (in module aigarmic) (in module aigarmic.file_handlers) (in module aigarmic.plate) get_csv_data() (aigarmic.plate.PlateSet method) (aigarmic.PlateSet method)

get_image_paths() (in module aigarmic.plate) get_inaccurate_images() (aigarmic.Plate method) (aigarmic.plate.Plate method) get_key() (aigarmic.Model method) (aigarmic.model.Model method) (aigarmic.Plate method) (aigarmic.plate.Model method) (aigarmic.plate.Plate method) get_paths_from_directory() (in module aigarmic) (in module aigarmic.file_handlers)

I

import_image() (aigarmic.Plate method) (aigarmic.plate.Plate method)

K

keras_image_to_cv2() (in module aigarmic)

KerasModel (class in aigarmic.model)

L

link_model() (aigarmic.Plate method) (aigarmic.plate.Plate method)

load_model() (aigarmic.model.KerasModel method)

M

matrix_dimensions() (aigarmic.Plate static method) (aigarmic.plate.Plate static method) Model (class in aigarmic) (class in aigarmic.model) (class in aigarmic.plate) module aigarmic aigarmic.file_handlers aigarmic.model aigarmic.plate aigarmic.process_plate_image aigarmic.train

O

on_epoch_end() (aigarmic.train.ValidationThresholdCallback method)

P

Plate (class in aigarmic) (class in aigarmic.plate) plate_set_from_dir() (in module aigarmic) (in module aigarmic.plate) PlateSet (class in aigarmic) (class in aigarmic.plate) predict() (aigarmic.BinaryModel method) (aigarmic.BinaryNestedModel method) (aigarmic.Model method) (aigarmic.model.BinaryModel method) (aigarmic.model.BinaryNestedModel method) (aigarmic.model.KerasModel method) (aigarmic.model.Model method) (aigarmic.model.SoftmaxModel method) (aigarmic.plate.Model method) (aigarmic.SoftmaxModel method)

predict_colony_images_from_directory() (in module aigarmic) (in module aigarmic.file_handlers) print_matrix() (aigarmic.Plate method) (aigarmic.plate.Plate method)

R

review_poor_images() (aigarmic.Plate method) (aigarmic.plate.Plate method) (aigarmic.plate.PlateSet method) (aigarmic.PlateSet method)

S

save_training_log() (in module aigarmic) (in module aigarmic.file_handlers) set_key() (aigarmic.Plate method) (aigarmic.plate.Plate method) SoftmaxModel (class in aigarmic) (class in aigarmic.model)

split_by_grid() (in module aigarmic) (in module aigarmic.plate) (in module aigarmic.process_plate_image) split_images() (aigarmic.Plate method) (aigarmic.plate.Plate method)

T

train_binary() (in module aigarmic) (in module aigarmic.train)

train_softmax() (in module aigarmic) (in module aigarmic.train)

V

valid_dimensions() (aigarmic.plate.PlateSet method) (aigarmic.PlateSet method) valid_growth_code_matrix() (aigarmic.Plate method) (aigarmic.plate.Plate method)

ValidationThresholdCallback (class in aigarmic.train) visualise_training() (in module aigarmic) (in module aigarmic.train)