Index

A

absolute() (cryoblob.Path method) adaptive_threshold() (in module cryoblob) (in module cryoblob.adapt) adaptive_wiener() (in module cryoblob) (in module cryoblob.adapt)

AdaptiveFilterConfig (class in cryoblob) (class in cryoblob.valid) AdaptiveFilterConfig.Config (class in cryoblob) (class in cryoblob.valid) apply_gaussian_blur() (in module cryoblob) (in module cryoblob.image)

B

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

BlobDetectionConfig.Config (class in cryoblob) (class in cryoblob.valid)

C

center_of_mass_3d() (in module cryoblob) (in module cryoblob.blobs) chmod() (cryoblob.Path method) create_default_pipeline() (in module cryoblob) (in module cryoblob.valid) create_fast_pipeline() (in module cryoblob) (in module cryoblob.valid) create_high_quality_pipeline() (in module cryoblob) (in module cryoblob.valid) cryoblob module cryoblob.adapt module

cryoblob.blobs module cryoblob.files module cryoblob.image module cryoblob.plots module cryoblob.types module cryoblob.valid module cwd() (cryoblob.Path class method)

D

difference_of_gaussians() (in module cryoblob) (in module cryoblob.image)

E

equalize_adapthist() (in module cryoblob) (in module cryoblob.image) equalize_hist() (in module cryoblob) (in module cryoblob.image) estimate_batch_size() (in module cryoblob) (in module cryoblob.files) estimate_memory_usage() (in module cryoblob) (in module cryoblob.files) exists() (cryoblob.Path method) expanduser() (cryoblob.Path method) exponential_kernel() (in module cryoblob) (in module cryoblob.image)

extra (cryoblob.AdaptiveFilterConfig.Config attribute) (cryoblob.BlobDetectionConfig.Config attribute) (cryoblob.FileProcessingConfig.Config attribute) (cryoblob.MRCMetadata.Config attribute) (cryoblob.PreprocessingConfig.Config attribute) (cryoblob.valid.AdaptiveFilterConfig.Config attribute) (cryoblob.valid.BlobDetectionConfig.Config attribute) (cryoblob.valid.FileProcessingConfig.Config attribute) (cryoblob.valid.MRCMetadata.Config attribute) (cryoblob.valid.PreprocessingConfig.Config attribute) (cryoblob.valid.ValidationPipeline.Config attribute) (cryoblob.ValidationPipeline.Config attribute)

F

file_params() (in module cryoblob) (in module cryoblob.files) FileProcessingConfig (class in cryoblob) (class in cryoblob.valid) FileProcessingConfig.Config (class in cryoblob) (class in cryoblob.valid) files() (in module cryoblob) find_connected_components() (in module cryoblob) (in module cryoblob.blobs) find_particle_coords() (in module cryoblob) (in module cryoblob.blobs) folder_blobs() (in module cryoblob) (in module cryoblob.files)

frozen (cryoblob.AdaptiveFilterConfig.Config attribute) (cryoblob.BlobDetectionConfig.Config attribute) (cryoblob.FileProcessingConfig.Config attribute) (cryoblob.MRCMetadata.Config attribute) (cryoblob.PreprocessingConfig.Config attribute) (cryoblob.valid.AdaptiveFilterConfig.Config attribute) (cryoblob.valid.BlobDetectionConfig.Config attribute) (cryoblob.valid.FileProcessingConfig.Config attribute) (cryoblob.valid.MRCMetadata.Config attribute) (cryoblob.valid.PreprocessingConfig.Config attribute) (cryoblob.valid.ValidationPipeline.Config attribute) (cryoblob.ValidationPipeline.Config attribute)

G

gaussian_kernel() (in module cryoblob) (in module cryoblob.image) get_optimal_batch_size() (in module cryoblob) (in module cryoblob.files)

glob() (cryoblob.Path method) group() (cryoblob.Path method)

H

hardlink_to() (cryoblob.Path method) histogram() (in module cryoblob) (in module cryoblob.image)

home() (cryoblob.Path class method)

I

image_resizer() (in module cryoblob) (in module cryoblob.image) is_block_device() (cryoblob.Path method) is_char_device() (cryoblob.Path method) is_dir() (cryoblob.Path method)

is_fifo() (cryoblob.Path method) is_file() (cryoblob.Path method) is_mount() (cryoblob.Path method) is_socket() (cryoblob.Path method) is_symlink() (cryoblob.Path method) iterdir() (cryoblob.Path method)

L

lchmod() (cryoblob.Path method) link_to() (cryoblob.Path method) load_mrc() (in module cryoblob) (in module cryoblob.files)

log_kernel() (in module cryoblob) (in module cryoblob.image) lstat() (cryoblob.Path method)

M

make_MRC_Image() (in module cryoblob) (in module cryoblob.types) mkdir() (cryoblob.Path method) module cryoblob cryoblob.adapt cryoblob.blobs cryoblob.files cryoblob.image cryoblob.plots cryoblob.types cryoblob.valid

MRCMetadata (class in cryoblob) (class in cryoblob.valid) MRCMetadata.Config (class in cryoblob) (class in cryoblob.valid)

O

open() (cryoblob.Path method)

owner() (cryoblob.Path method)

P

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

PreprocessingConfig (class in cryoblob) (class in cryoblob.valid) PreprocessingConfig.Config (class in cryoblob) (class in cryoblob.valid) process_batch_of_files() (in module cryoblob) (in module cryoblob.files) process_single_file() (in module cryoblob) (in module cryoblob.files)

R

read_bytes() (cryoblob.Path method) read_text() (cryoblob.Path method) readlink() (cryoblob.Path method) rename() (cryoblob.Path method) replace() (cryoblob.Path method)

resize_x() (in module cryoblob) (in module cryoblob.image) resolve() (cryoblob.Path method) rglob() (cryoblob.Path method) rmdir() (cryoblob.Path method)

S

samefile() (cryoblob.Path method)

stat() (cryoblob.Path method) symlink_to() (cryoblob.Path method)

T

to_blob_kwargs() (cryoblob.valid.ValidationPipeline method) (cryoblob.ValidationPipeline method)

to_preprocessing_kwargs() (cryoblob.valid.ValidationPipeline method) (cryoblob.ValidationPipeline method) touch() (cryoblob.Path method)

U

unlink() (cryoblob.Path method)

V

validate_conflicting_options() (cryoblob.PreprocessingConfig method) (cryoblob.valid.PreprocessingConfig method) validate_data_range() (cryoblob.MRCMetadata method) (cryoblob.valid.MRCMetadata method) validate_folder_exists() (cryoblob.FileProcessingConfig method) (cryoblob.valid.FileProcessingConfig method) validate_for_adaptive_processing() (cryoblob.valid.ValidationPipeline method) (cryoblob.ValidationPipeline method) validate_for_batch_processing() (cryoblob.valid.ValidationPipeline method) (cryoblob.ValidationPipeline method) validate_for_single_image() (cryoblob.valid.ValidationPipeline method) (cryoblob.ValidationPipeline method) validate_kernel_size() (cryoblob.AdaptiveFilterConfig method) (cryoblob.valid.AdaptiveFilterConfig method)

validate_max_blob_size() (cryoblob.BlobDetectionConfig method) (cryoblob.valid.BlobDetectionConfig method) validate_mean_in_range() (cryoblob.MRCMetadata method) (cryoblob.valid.MRCMetadata method) validate_mrc_metadata() (in module cryoblob) (in module cryoblob.valid) validate_sigma_values() (cryoblob.PreprocessingConfig method) (cryoblob.valid.PreprocessingConfig method) ValidationPipeline (class in cryoblob) (class in cryoblob.valid) ValidationPipeline.Config (class in cryoblob) (class in cryoblob.valid)

W

wiener() (in module cryoblob) (in module cryoblob.image)

write_bytes() (cryoblob.Path method) write_text() (cryoblob.Path method)