Index

B

BaseKmeansFilter (class in pyfibre.model.tools.base_kmeans_filter) BasePyFibreObject (class in pyfibre.model.core.base_pyfibre_object)

binary_classifier_spherical() (in module pyfibre.shg_pl_trans.tools.shg_pl_trans_kmeans_filter) branch_angles() (in module pyfibre.model.tools.fibre_utilities)

C

calculate_metric() (in module pyfibre.model.tools.feature) cellular_classifier() (pyfibre.model.tools.base_kmeans_filter.BaseKmeansFilter method) (pyfibre.shg_pl_trans.tools.shg_pl_trans_kmeans_filter.SHGPLTransKmeansFilter method) check_2D_arrays() (in module pyfibre.model.tools.fibre_utilities)

check_file_name() (in module pyfibre.io.utilities) check_string() (in module pyfibre.io.utilities) clip_intensities() (in module pyfibre.model.tools.preprocessing) cos_sin_theta_2D() (in module pyfibre.model.tools.fibre_utilities)

D

derivatives() (in module pyfibre.model.tools.filters) deserialize_networkx_graph() (in module pyfibre.io.utilities)

distance_matrix() (in module pyfibre.model.tools.fibre_utilities) distance_sum() (in module pyfibre.shg_pl_trans.tools.shg_pl_trans_kmeans_filter)

E

extract_prefix() (in module pyfibre.shg_pl_trans.utils)

F

filter_image() (pyfibre.model.tools.base_kmeans_filter.BaseKmeansFilter method) filter_input_files() (in module pyfibre.shg_pl_trans.utils) form_nematic_tensor() (in module pyfibre.model.tools.filters)

form_structure_tensor() (in module pyfibre.model.tools.filters) from_array() (pyfibre.model.core.base_pyfibre_object.BasePyFibreObject class method) from_json() (pyfibre.model.core.base_pyfibre_object.BasePyFibreObject class method)

G

gaussian() (in module pyfibre.model.tools.filters) generate_database() (pyfibre.model.core.base_pyfibre_object.BasePyFibreObject method) get_edge_list() (in module pyfibre.model.tools.fibre_utilities) get_file_names() (in module pyfibre.io.utilities) get_files_prefixes() (in module pyfibre.shg_pl_trans.utils) get_image_type() (in module pyfibre.shg_pl_trans.utils)

get_node_coord_array() (in module pyfibre.model.tools.fibre_utilities) get_node_degree_array() (in module pyfibre.model.tools.fibre_utilities) glcm_difference_props() (in module pyfibre.model.tools.feature) glcm_log_props() (in module pyfibre.model.tools.feature) glcm_product_props() (in module pyfibre.model.tools.feature) glcm_props() (in module pyfibre.model.tools.feature) greycoprops_edit() (in module pyfibre.model.tools.feature)

H

hysteresis() (in module pyfibre.model.tools.filters)

L

load_database() (in module pyfibre.io.database_io) load_json() (in module pyfibre.io.utilities)

load_network() (in module pyfibre.io.network_io) load_numpy() (in module pyfibre.io.utilities)

M

mean_binary() (in module pyfibre.model.tools.utilities)

N

new_branches() (in module pyfibre.model.tools.fibre_utilities) nl_means() (in module pyfibre.model.tools.preprocessing)

nonzero_mean() (in module pyfibre.shg_pl_trans.tools.shg_pl_trans_kmeans_filter) numpy_to_python_recursive() (in module pyfibre.io.utilities)

P

parse_file_path() (in module pyfibre.io.utilities) plugin_id() (in module pyfibre.ids) pop_dunder_recursive() (in module pyfibre.io.utilities) pop_recursive() (in module pyfibre.io.utilities) pop_under_recursive() (in module pyfibre.io.utilities) pyfibre (module) pyfibre.core (module) pyfibre.ids (module) pyfibre.io (module) pyfibre.io.database_io (module) pyfibre.io.network_io (module) pyfibre.io.utilities (module) pyfibre.model (module) pyfibre.model.analysers (module) pyfibre.model.core (module)

pyfibre.model.core.base_pyfibre_object (module) pyfibre.model.multi_image (module) pyfibre.model.objects (module) pyfibre.model.tools (module) pyfibre.model.tools.base_kmeans_filter (module) pyfibre.model.tools.feature (module) pyfibre.model.tools.fibre_utilities (module) pyfibre.model.tools.filters (module) pyfibre.model.tools.preprocessing (module) pyfibre.model.tools.utilities (module) pyfibre.shg_pl_trans (module) pyfibre.shg_pl_trans.tools (module) pyfibre.shg_pl_trans.tools.shg_pl_trans_kmeans_filter (module) pyfibre.shg_pl_trans.utils (module) pyfibre.version (module) python_to_numpy_recursive() (in module pyfibre.io.utilities)

R

reduce_coord() (in module pyfibre.model.tools.fibre_utilities) region_check() (in module pyfibre.model.tools.utilities) region_swap() (in module pyfibre.model.tools.utilities) remove_contraction() (in module pyfibre.io.utilities)

remove_dunder() (in module pyfibre.io.utilities) remove_redundant_nodes() (in module pyfibre.model.tools.fibre_utilities) remove_under() (in module pyfibre.io.utilities) replace_ext() (in module pyfibre.io.utilities)

S

save_database() (in module pyfibre.io.database_io) save_json() (in module pyfibre.io.utilities) save_network() (in module pyfibre.io.network_io) save_numpy() (in module pyfibre.io.utilities)

serialize_networkx_graph() (in module pyfibre.io.utilities) SHGPLTransKmeansFilter (class in pyfibre.shg_pl_trans.tools.shg_pl_trans_kmeans_filter) simplify_network() (in module pyfibre.model.tools.fibre_utilities) smooth_binary() (in module pyfibre.model.tools.utilities) spherical_coords() (in module pyfibre.shg_pl_trans.tools.shg_pl_trans_kmeans_filter)

T

to_array() (pyfibre.model.core.base_pyfibre_object.BasePyFibreObject method) to_json() (pyfibre.model.core.base_pyfibre_object.BasePyFibreObject method)

transfer_edges() (in module pyfibre.model.tools.fibre_utilities) tubeness() (in module pyfibre.model.tools.filters)