Index

A

add_verbosity_options_to_argparser() (in module PyMAIA.utils.log_utils)

C

convert_DICOM_folder_to_NIFTI_image() (in module PyMAIA.utils.volume_utils) convert_nifti_pred_to_dicom_seg() (in module PyMAIA.utils.file_utils) copy_data_from_dict_to_dataset_folder() (in module PyMAIA.utils.file_utils) copy_data_to_dataset_folder() (in module PyMAIA.utils.file_utils)

copy_image_file() (in module PyMAIA.utils.file_utils) copy_label_file() (in module PyMAIA.utils.file_utils) copy_subject_folder_to_data_folder() (in module PyMAIA.utils.file_utils) create_nndet_data_folder_tree() (in module PyMAIA.utils.file_utils) create_nnunet_data_folder_tree() (in module PyMAIA.utils.file_utils)

D

dcm2nii_CT() (in module PyMAIA.utils.volume_utils)

dcm2nii_mask() (in module PyMAIA.utils.volume_utils) dcm2nii_seg() (in module PyMAIA.utils.volume_utils)

G

generate_dataset_json() (in module PyMAIA.utils.file_utils)

get_logger() (in module PyMAIA.utils.log_utils)

L

log_lvl_from_verbosity_args() (in module PyMAIA.utils.log_utils)

M

module nndet_compute_metric_results nndet_create_pipeline nndet_extract_experiment_predictions nndet_prepare_data_folder nndet_run_preprocessing nndet_run_training nnunet_create_pipeline nnunet_prepare_data_folder nnunet_run_plan_and_preprocessing nnunet_run_preprocessing nnunet_run_training PyMAIA PyMAIA.utils PyMAIA.utils.file_utils PyMAIA.utils.log_utils PyMAIA.utils.seg_mask_utils PyMAIA.utils.volume_utils PyMAIA_convert_DICOM_dataset_to_NIFTI_dataset PyMAIA_convert_NIFTI_predictions_to_DICOM_SEG PyMAIA_convert_semantic_to_instance_segmentation PyMAIA_create_subset PyMAIA_downsample_modality PyMAIA_order_data_folder PyMAIA_run_pipeline_from_file

N

nndet_compute_metric_results module nndet_create_pipeline module nndet_extract_experiment_predictions module nndet_prepare_data_folder module nndet_run_preprocessing module nndet_run_training module

nnunet_create_pipeline module nnunet_prepare_data_folder module nnunet_run_plan_and_preprocessing module nnunet_run_preprocessing module nnunet_run_training module normalize_PET_to_SUV_BW() (in module PyMAIA.utils.volume_utils)

O

order_data_folder_by_patient() (in module PyMAIA.utils.file_utils)

order_data_in_single_folder() (in module PyMAIA.utils.file_utils)

P

PyMAIA module PyMAIA.utils module PyMAIA.utils.file_utils module PyMAIA.utils.log_utils module PyMAIA.utils.seg_mask_utils module PyMAIA.utils.volume_utils module PyMAIA_convert_DICOM_dataset_to_NIFTI_dataset module

PyMAIA_convert_NIFTI_predictions_to_DICOM_SEG module PyMAIA_convert_semantic_to_instance_segmentation module PyMAIA_create_subset module PyMAIA_downsample_modality module PyMAIA_order_data_folder module PyMAIA_run_pipeline_from_file module

R

remove_empty_folder_recursive() (in module PyMAIA.utils.file_utils)

resample_image() (in module PyMAIA.utils.volume_utils)

S

save_config_json() (in module PyMAIA.utils.file_utils) semantic_segmentation_to_instance() (in module PyMAIA.utils.seg_mask_utils) setup_logging() (in module PyMAIA.utils.log_utils)

split_dataset() (in module PyMAIA.utils.file_utils) str2bool() (in module PyMAIA.utils.log_utils) subfiles() (in module PyMAIA.utils.file_utils) subfolders() (in module PyMAIA.utils.file_utils)