GitHub - MouseLightProject/mouselight_toolbox: A Matlab toolbox for doing MouseLight-y things

Branches Tags

Name		Name	Last commit message	Last commit date
Latest commit History 128 Commits
.dvc		.dvc
check-tiles		check-tiles
common		common
foreground-classifiers		foreground-classifiers
freezing		freezing
landmark-matching		landmark-matching
line-fix		line-fix
rendering		rendering
sample-2022-02-01		sample-2022-02-01
stitching		stitching
tmt @ c303b07		tmt @ c303b07
.dvcignore		.dvcignore
.gitignore		.gitignore
.gitmodules		.gitmodules
adjacency_from_forest_as_named_trees.m		adjacency_from_forest_as_named_trees.m
affine_from_cpg_targets.m		affine_from_cpg_targets.m
are_md5s_the_same.m		are_md5s_the_same.m
are_paired_descriptors_close_enough.m		are_paired_descriptors_close_enough.m
bag_items_by_id.m		bag_items_by_id.m
barycentric_interpolant.m		barycentric_interpolant.m
base_name_from_file_name.m		base_name_from_file_name.m
bits_from_chunk_ijk0.m		bits_from_chunk_ijk0.m
bits_from_octree_path.m		bits_from_octree_path.m
build_full_trees_as_named_tree_mats.m		build_full_trees_as_named_tree_mats.m
build_full_trees_as_named_tree_mats_function.m		build_full_trees_as_named_tree_mats_function.m
build_raw_tile_index.m		build_raw_tile_index.m
build_raw_tile_index_for_neighborhood.m		build_raw_tile_index_for_neighborhood.m
build_tile_index_dirwalk_callback.m		build_tile_index_dirwalk_callback.m
chain_length_from_chain.m		chain_length_from_chain.m
chains_from_rooted_tree.m		chains_from_rooted_tree.m
chains_from_rooted_tree_in_place.m		chains_from_rooted_tree_in_place.m
chains_from_rooted_tree_with_id_tracking.m		chains_from_rooted_tree_with_id_tracking.m
chains_from_tree.m		chains_from_tree.m
chains_from_tree_in_place.m		chains_from_tree_in_place.m
chains_from_tree_with_id_tracking.m		chains_from_tree_with_id_tracking.m
channel_index0_as_string_from_tile_file_name.m		channel_index0_as_string_from_tile_file_name.m
chunk_bounding_box_from_bounding_box.m		chunk_bounding_box_from_bounding_box.m
chunk_ijk0_from_bits.m		chunk_ijk0_from_bits.m
chunk_ijk1s_from_octree_paths.m		chunk_ijk1s_from_octree_paths.m
clean_up_skeleton_component.m		clean_up_skeleton_component.m
clean_up_skeleton_graph.m		clean_up_skeleton_graph.m
collect_fragments_into_single_mat_file.m		collect_fragments_into_single_mat_file.m
collect_landmarks.m		collect_landmarks.m
collect_z_face_matches.m		collect_z_face_matches.m
compute_affine_landmark_match_distance.m		compute_affine_landmark_match_distance.m
compute_affine_landmark_match_error.m		compute_affine_landmark_match_error.m
compute_barycentric_landmark_match_distance.m		compute_barycentric_landmark_match_distance.m
compute_barycentric_landmark_match_error.m		compute_barycentric_landmark_match_error.m
compute_landmarks.sh		compute_landmarks.sh
compute_landmarks_for_all_tile_channels.m		compute_landmarks_for_all_tile_channels.m
compute_landmarks_for_patrick_pipeline.m		compute_landmarks_for_patrick_pipeline.m
compute_or_read_from_memo.m		compute_or_read_from_memo.m
compute_z_matches.sh		compute_z_matches.sh
compute_z_matches_for_patrick_pipeline.m		compute_z_matches_for_patrick_pipeline.m
connected_components_with_fractionation.m		connected_components_with_fractionation.m
connected_components_without_fractionation.m		connected_components_without_fractionation.m
convert_full_named_trees_as_mat_to_swc.m		convert_full_named_trees_as_mat_to_swc.m
convert_named_tree_to_jaws_coords.m		convert_named_tree_to_jaws_coords.m
convert_named_trees_to_jaws_coords.m		convert_named_trees_to_jaws_coords.m
convert_swc_array_to_jaws_coords.m		convert_swc_array_to_jaws_coords.m
convert_swc_arrays_to_jaws_coords.m		convert_swc_arrays_to_jaws_coords.m
copy_raw_tile_neighborhood.m		copy_raw_tile_neighborhood.m
copy_raw_tile_neighborhood_as_links.m		copy_raw_tile_neighborhood_as_links.m
correctTiles.m		correctTiles.m
decimate_chain.m		decimate_chain.m
decimate_chains.m		decimate_chains.m
defragment_node_ids_in_edges.m		defragment_node_ids_in_edges.m
directed_adjacency_from_edges.m		directed_adjacency_from_edges.m
directed_adjacency_from_forest_of_named_trees.m		directed_adjacency_from_forest_of_named_trees.m
directed_adjacency_from_named_tree.m		directed_adjacency_from_named_tree.m
does_file_name_end_in_dot_mj2.m		does_file_name_end_in_dot_mj2.m
does_file_name_end_in_dot_tif.m		does_file_name_end_in_dot_tif.m
does_file_name_end_in_dot_tif_and_mj2_is_missing.m		does_file_name_end_in_dot_tif_and_mj2_is_missing.m
does_file_name_match_certificate_file.m		does_file_name_match_certificate_file.m
does_file_name_not_end_in_dot_mj2.m		does_file_name_not_end_in_dot_mj2.m
does_file_name_not_end_in_dot_tif.m		does_file_name_not_end_in_dot_tif.m
does_match_channel_0_raw_tile_tif_name.m		does_match_channel_0_raw_tile_tif_name.m
does_match_raw_tile_tif_name.m		does_match_raw_tile_tif_name.m
does_match_regexp.m		does_match_regexp.m
does_md5_match.m		does_md5_match.m
does_not_match_raw_tile_tif_name.m		does_not_match_raw_tile_tif_name.m
dogDescriptor.m		dogDescriptor.m
edges_from_chains.m		edges_from_chains.m
edges_from_named_tree.m		edges_from_named_tree.m
empty_named_tree_struct.m		empty_named_tree_struct.m
extract_tiles_near_tile.m		extract_tiles_near_tile.m
figure_mip.m		figure_mip.m
figure_to_check_alignment_to_stack.m		figure_to_check_alignment_to_stack.m
file_accumulate_map_filter.m		file_accumulate_map_filter.m
file_path_from_chunk_path.m		file_path_from_chunk_path.m
file_path_from_tile_path.m		file_path_from_tile_path.m
file_relative_path_from_tile_relative_path.m		file_relative_path_from_tile_relative_path.m
find_and_batch.m		find_and_batch.m
find_and_list.m		find_and_list.m
find_and_verify.m		find_and_verify.m
find_fragments_near_neuron.m		find_fragments_near_neuron.m
find_fragments_near_neurons.m		find_fragments_near_neurons.m
find_label_and_get_value_in_acquisition_file.m		find_label_and_get_value_in_acquisition_file.m
fraction_of_xyzs_at_voxel_centers_using_erhan_conventions.m		fraction_of_xyzs_at_voxel_centers_using_erhan_conventions.m
generate_fragments.m		generate_fragments.m