Index

A

adaptive_marker_generation() (in module cryoblob.multi) adaptive_threshold() (in module cryoblob.adapt) adaptive_wiener() (in module cryoblob.adapt)

AdaptiveFilterConfig (class in cryoblob.types) apply_filter (cryoblob.types.PreprocessingConfig attribute), [1] apply_gaussian_blur() (in module cryoblob.image)

B

background (cryoblob.types.PreprocessingConfig attribute), [1] batch_size (cryoblob.types.FileProcessingConfig attribute), [1]

blob_list_log() (in module cryoblob.blobs) BlobDetectionConfig (class in cryoblob.types)

C

center_of_mass_3d() (in module cryoblob.blobs) compactness (cryoblob.types.WatershedConfig attribute), [1] cryoblob.adapt module cryoblob.blobs module cryoblob.files module cryoblob.image module

cryoblob.multi module cryoblob.plots module cryoblob.types module cryoblob.valid module

D

detection_threshold (cryoblob.types.EnhancedBlobDetectionConfig attribute), [1] determinant_of_hessian() (in module cryoblob.multi) difference_of_gaussians() (in module cryoblob.image)

distance_transform_euclidean() (in module cryoblob.multi) dmax (cryoblob.types.MRCMetadata attribute), [1] dmean (cryoblob.types.MRCMetadata attribute), [1] dmin (cryoblob.types.MRCMetadata attribute), [1]

E

enhanced_blob_detection() (in module cryoblob.multi) EnhancedBlobDetectionConfig (class in cryoblob.types) equalize_adapthist() (in module cryoblob.image) equalize_hist() (in module cryoblob.image)

estimate_batch_size() (in module cryoblob.files) estimate_memory_usage() (in module cryoblob.files) exclude_border (cryoblob.types.BlobDetectionConfig attribute), [1] exponential (cryoblob.types.PreprocessingConfig attribute), [1] exponential_kernel() (in module cryoblob.image)

F

file_params() (in module cryoblob.files) FileProcessingConfig (class in cryoblob.types)

find_connected_components() (in module cryoblob.blobs) find_particle_coords() (in module cryoblob.blobs) folder_blobs() (in module cryoblob.files)

G

gaussian_kernel() (in module cryoblob.image)

gblur (cryoblob.types.PreprocessingConfig attribute), [1] get_optimal_batch_size() (in module cryoblob.files)

H

hessian_blob_detection() (in module cryoblob.multi) hessian_matrix_2d() (in module cryoblob.multi)

HessianBlobConfig (class in cryoblob.types) histogram() (in module cryoblob.image)

I

image_resizer() (in module cryoblob.image)

iterations (cryoblob.types.AdaptiveFilterConfig attribute), [1]

K

kernel_size (cryoblob.types.AdaptiveFilterConfig attribute), [1]

L

load_mrc() (in module cryoblob.files)

log_kernel() (in module cryoblob.image) logarizer (cryoblob.types.PreprocessingConfig attribute), [1]

M

make_adaptive_filter_config() (in module cryoblob.valid) make_blob_detection_config() (in module cryoblob.valid) make_enhanced_blob_detection_config() (in module cryoblob.valid) make_file_processing_config() (in module cryoblob.valid) make_hessian_blob_config() (in module cryoblob.valid) make_mrc_image() (in module cryoblob.valid) make_mrc_metadata() (in module cryoblob.valid) make_preprocessing_config() (in module cryoblob.valid) make_ridge_detection_config() (in module cryoblob.valid) make_watershed_config() (in module cryoblob.valid) max_blob_size (cryoblob.types.EnhancedBlobDetectionConfig attribute), [1] max_scale (cryoblob.types.RidgeDetectionConfig attribute), [1] max_sigma (cryoblob.types.BlobDetectionConfig attribute), [1] (cryoblob.types.HessianBlobConfig attribute), [1] memory_limit_gb (cryoblob.types.FileProcessingConfig attribute), [1] min_blob_size (cryoblob.types.EnhancedBlobDetectionConfig attribute), [1]

min_distance (cryoblob.types.WatershedConfig attribute), [1] min_scale (cryoblob.types.RidgeDetectionConfig attribute), [1] min_sigma (cryoblob.types.BlobDetectionConfig attribute), [1] (cryoblob.types.HessianBlobConfig attribute), [1] mode (cryoblob.types.MRCMetadata attribute), [1] module cryoblob.adapt cryoblob.blobs cryoblob.files cryoblob.image cryoblob.multi cryoblob.plots cryoblob.types cryoblob.valid MRCMetadata (class in cryoblob.types) multi_scale_ridge_detector() (in module cryoblob.multi)

N

noise_estimate (cryoblob.types.AdaptiveFilterConfig attribute), [1] num_sigma (cryoblob.types.BlobDetectionConfig attribute), [1] (cryoblob.types.HessianBlobConfig attribute), [1]

nx (cryoblob.types.MRCMetadata attribute), [1] ny (cryoblob.types.MRCMetadata attribute), [1] nz (cryoblob.types.MRCMetadata attribute), [1]

P

perona_malik() (in module cryoblob.image) plot_mrc() (in module cryoblob.plots) preprocessing() (in module cryoblob.blobs)

PreprocessingConfig (class in cryoblob.types) process_batch_of_files() (in module cryoblob.files) process_single_file() (in module cryoblob.files)

R

resize_x() (in module cryoblob.image)

ridge_detection() (in module cryoblob.multi) RidgeDetectionConfig (class in cryoblob.types)

S

scale_step (cryoblob.types.RidgeDetectionConfig attribute), [1]

T

threshold (cryoblob.types.BlobDetectionConfig attribute), [1] (cryoblob.types.HessianBlobConfig attribute), [1] (cryoblob.types.RidgeDetectionConfig attribute), [1]

threshold_abs (cryoblob.types.WatershedConfig attribute), [1]

U

use_ridge_detection (cryoblob.types.EnhancedBlobDetectionConfig attribute), [1]

use_watershed (cryoblob.types.EnhancedBlobDetectionConfig attribute), [1]

W

watershed_segmentation() (in module cryoblob.multi)

WatershedConfig (class in cryoblob.types) wiener() (in module cryoblob.image)