Index

_

__init__() (ipa.processing.segmentation.unified.SXTISGMaskRCNNSegmenter method)

_load_model_impl() (ipa.processing.segmentation.unified.SXTISGMaskRCNNSegmenter method)

A

actin_angle_distance_pair_enhanced_analysis() (in module ipa.analysis) actin_to_actin_analysis() (in module ipa.analysis) actin_to_endoreticulum_analysis() (in module ipa.analysis) actin_to_microtube_analysis() (in module ipa.analysis) actin_to_mito_analysis() (in module ipa.analysis) actin_to_vesicle_analysis() (in module ipa.analysis)

actin_to_vesicle_dist_angle_pair_analysis() (in module ipa.analysis) actinangle2dist_enhanced() (in module ipa.analysis) analyze_anchored_organelle_angles() (in module ipa.analysis) analyze_docked_granules() (in module ipa.analysis) analyze_organelle_aggregation() (in module ipa.analysis) analyze_vesicle_clusters() (in module ipa.analysis)

B

BaseSegmenter (class in ipa.processing.segmentation)

batch_load() (ipa.data_loader.UniversalDataLoader static method), [1]

C

calculate_3d_velocity() (in module ipa.analysis) calculate_contact_probability() (in module ipa.analysis) calculate_contact_rdf() (in module ipa.analysis) calculate_distributional_similarity() (in module ipa.analysis) calculate_radial_velocity() (in module ipa.analysis) calculate_rdf_from_xvg() (in module ipa.analysis)

calculate_tubular_length() (in module ipa.analysis) create_nepm_radial_partitions() (ipa.processing.partitioning.Partitioning method), [1] create_nepm_radial_partitions_pure_pairs() (ipa.processing.partitioning.Partitioning method) create_nepm_radial_partitions_with_edt() (ipa.processing.partitioning.Partitioning method) create_shell_based_partitions() (ipa.processing.partitioning.Partitioning method) create_velocity_violin_plot() (in module ipa.analysis)

E

error() (ipa.data_loader.QuickLogger method) extract_isg_features() (in module ipa.analysis)

extract_ne_pm_edges() (ipa.processing.partitioning.Partitioning method), [1] extract_partition_coordinates() (ipa.processing.partitioning.Partitioning method), [1]

F

file_in() (ipa.data_loader.QuickLogger method)

file_out() (ipa.data_loader.QuickLogger method) find_ne_pm_pairs() (ipa.processing.partitioning.Partitioning method)

G

get_info() (ipa.processing.segmentation.BaseSegmenter method)

get_last_metadata() (ipa.data_loader.UniversalDataLoader method) get_supported_formats() (ipa.data_loader.UniversalDataLoader static method)

L

load_data() (ipa.data_loader.UniversalDataLoader static method), [1] load_mask_data() (ipa.processing.partitioning.Partitioning method) load_model() (ipa.processing.segmentation.BaseSegmenter method)

load_partition_coords_from_xvg() (in module ipa.analysis) log_analysis() (in module ipa.data_loader) logger (ipa.data_loader.QuickLogger attribute)

M

microtube_to_actin_analysis() (in module ipa.analysis) microtube_to_endoreticulum_analysis() (in module ipa.analysis) microtube_to_mito_analysis() (in module ipa.analysis)

microtube_to_vesicle_analysis() (in module ipa.analysis) min_angle() (ipa.processing.partitioning.Partitioning static method) mito_to_endoreticulum_analysis() (in module ipa.analysis)

N

N2N (class in ipa.processing.denoising)

N2V (class in ipa.processing.denoising)

P

Partitioning (class in ipa.processing.partitioning) plot_partition_features() (in module ipa.processing.partitioning) points_along_vector() (ipa.processing.partitioning.Partitioning static method)

predict() (ipa.processing.denoising.N2N method) (ipa.processing.denoising.N2V method) (ipa.processing.segmentation.BaseSegmenter method) (ipa.processing.segmentation.unified.SXTISGMaskRCNNSegmenter method)

Q

QuickLogger (class in ipa.data_loader)

R

reconstruct_4d_mask() (in module ipa.analysis)

S

save_model() (ipa.processing.segmentation.BaseSegmenter method) save_partition_coords_to_xvg() (ipa.processing.partitioning.Partitioning method), [1] save_radial_rdf_results() (in module ipa.analysis) shell_partition() (ipa.processing.partitioning.Partitioning method)

shell_partition_optimized() (ipa.processing.partitioning.Partitioning method) smooth_mask() (ipa.processing.partitioning.Partitioning static method) step() (ipa.data_loader.QuickLogger method) SXTISGMaskRCNNSegmenter (class in ipa.processing.segmentation.unified)

T

train() (ipa.processing.denoising.N2N method) (ipa.processing.denoising.N2V method) (ipa.processing.segmentation.BaseSegmenter method)

U

UniversalDataLoader (class in ipa.data_loader)

V

vesicle_to_endoreticulum_analysis() (in module ipa.analysis)

vesicle_to_mito_analysis() (in module ipa.analysis) visualize_partitions() (in module ipa.processing.partitioning)