Mindboggle
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Index
A
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B
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C
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D
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E
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F
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G
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H
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I
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K
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L
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M
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N
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O
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P
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R
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S
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T
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U
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V
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W
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X
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Z
A
antsApplyTransformsToPoints() (in module mindboggle.thirdparty.ants)
apply_affine_transforms() (in module mindboggle.mio.vtks)
area() (in module mindboggle.shapes.surface_shapes)
area_normalize() (in module mindboggle.shapes.laplace_beltrami)
area_of_faces() (in module mindboggle.guts.mesh)
B
boxplots_of_lists() (in module mindboggle.mio.plots)
brainstem_colors (DKTprotocol attribute)
brainstem_list (DKTprotocol attribute)
brainstem_names (DKTprotocol attribute)
brainstem_numbers (DKTprotocol attribute)
C
cache_hashes() (in module mindboggle.mio.fetch_data)
cerebellum_colors (DKTprotocol attribute)
cerebellum_cortex_colors (DKTprotocol attribute)
cerebellum_cortex_names (DKTprotocol attribute)
cerebellum_cortex_numbers (DKTprotocol attribute)
cerebellum_names (DKTprotocol attribute)
cerebellum_noncortex_colors (DKTprotocol attribute)
cerebellum_noncortex_names (DKTprotocol attribute)
cerebellum_noncortex_numbers (DKTprotocol attribute)
cerebellum_numbers (DKTprotocol attribute)
cerebrum_colors (DKTprotocol attribute)
cerebrum_cortex_colors (DKTprotocol attribute)
cerebrum_cortex_DKT31_colors (DKTprotocol attribute)
cerebrum_cortex_DKT31_names (DKTprotocol attribute)
cerebrum_cortex_DKT31_numbers (DKTprotocol attribute)
cerebrum_cortex_names (DKTprotocol attribute)
cerebrum_cortex_numbers (DKTprotocol attribute)
cerebrum_names (DKTprotocol attribute)
cerebrum_noncortex_colors (DKTprotocol attribute)
cerebrum_noncortex_names (DKTprotocol attribute)
cerebrum_noncortex_numbers (DKTprotocol attribute)
cerebrum_numbers (DKTprotocol attribute)
collate_participant_tables() (in module mindboggle.mio.tables)
colormap (DKTprotocol attribute)
colormap_normalized (DKTprotocol attribute)
colors (DKTprotocol attribute)
combine_2labels_in_2volumes() (in module mindboggle.guts.segment)
compute_image_histogram() (in module mindboggle.guts.compute)
compute_likelihood() (in module mindboggle.shapes.likelihood)
compute_overlaps() (in module mindboggle.guts.compute)
computeAB() (in module mindboggle.shapes.laplace_beltrami)
concatenate_sulcus_scalars() (in module mindboggle.shapes.likelihood)
connect_points_erosion() (in module mindboggle.guts.paths)
connect_points_hmmf() (in module mindboggle.guts.paths)
convert2nii() (in module mindboggle.mio.convert_volumes)
count_per_label() (in module mindboggle.guts.compute)
curvature() (in module mindboggle.shapes.surface_shapes)
D
decimate() (in module mindboggle.guts.mesh)
decimate_file() (in module mindboggle.guts.mesh)
dilate() (in module mindboggle.guts.mesh)
distcorr() (in module mindboggle.guts.compute)
distinguishable_colors() (in module mindboggle.mio.colors)
DKT31_groups (DKTprotocol attribute)
DKT31_names (DKTprotocol attribute)
DKT31_numbers (DKTprotocol attribute)
DKTprotocol (class in mindboggle.mio.labels)
E
erode() (in module mindboggle.guts.mesh)
estimate_distribution() (in module mindboggle.shapes.likelihood)
evaluate_deep_features() (in module mindboggle.evaluate.evaluate_features)
evaluate_surface_overlaps() (in module mindboggle.evaluate.evaluate_labels)
evaluate_surface_overlaps_cpp() (in module mindboggle.evaluate.evaluate_labels)
evaluate_volume_overlaps() (in module mindboggle.evaluate.evaluate_labels)
execute() (in module mindboggle.guts.utilities)
explode_mindboggle_tables() (in module mindboggle.mio.tables)
explode_scalars() (in module mindboggle.mio.vtks)
explode_scalars_mindboggle() (in module mindboggle.mio.vtks)
explode_table() (in module mindboggle.mio.tables)
extra_colors (DKTprotocol attribute)
extra_list (DKTprotocol attribute)
extra_names (DKTprotocol attribute)
extra_numbers (DKTprotocol attribute)
extract_borders() (in module mindboggle.guts.segment)
extract_borders_2nd_surface() (in module mindboggle.guts.segment)
extract_edge() (in module mindboggle.guts.mesh)
extract_folds() (in module mindboggle.features.folds)
extract_fundi() (in module mindboggle.features.fundi)
extract_numbers_names_colors() (in module mindboggle.mio.labels)
extract_sulci() (in module mindboggle.features.sulci)
F
fem_laplacian() (in module mindboggle.shapes.laplace_beltrami)
fetch_ants_data() (in module mindboggle.mio.fetch_data)
fetch_check_data() (in module mindboggle.mio.fetch_data)
fetch_data() (in module mindboggle.mio.fetch_data)
fetch_file_path() (in module mindboggle.data.data)
fetch_hash() (in module mindboggle.mio.fetch_data)
find_adjacent_faces() (in module mindboggle.guts.mesh)
find_complete_faces() (in module mindboggle.guts.mesh)
find_depth_threshold() (in module mindboggle.features.folds)
find_edges() (in module mindboggle.guts.mesh)
find_endpoints() (in module mindboggle.guts.mesh)
find_faces_at_edges() (in module mindboggle.guts.mesh)
find_faces_at_vertices() (in module mindboggle.guts.mesh)
find_faces_with_vertex() (in module mindboggle.guts.mesh)
find_max_values() (in module mindboggle.guts.paths)
find_neighborhood() (in module mindboggle.guts.mesh)
find_neighbors() (in module mindboggle.guts.mesh)
find_neighbors_from_file() (in module mindboggle.guts.mesh)
find_neighbors_vertex() (in module mindboggle.guts.mesh)
find_outer_endpoints() (in module mindboggle.guts.paths)
fit_normals_to_histogram() (in module mindboggle.shapes.likelihood)
fname2df() (in module mindboggle.mio.tables)
freesurfer_annot_to_vtk() (in module mindboggle.mio.vtks)
freesurfer_curvature_to_vtk() (in module mindboggle.mio.vtks)
freesurfer_surface_to_vtk() (in module mindboggle.mio.vtks)
G
geodesic_depth() (in module mindboggle.shapes.surface_shapes)
get_info() (in module mindboggle)
group_colors() (in module mindboggle.mio.colors)
H
histogram_of_vtk_scalars() (in module mindboggle.mio.plots)
histograms_of_lists() (in module mindboggle.mio.plots)
I
i (DKTprotocol attribute)
ImageMath() (in module mindboggle.thirdparty.ants)
index_normalize() (in module mindboggle.shapes.laplace_beltrami)
info (module)
INIT_MSG() (in module mindboggle)
inverse_distance() (in module mindboggle.guts.kernels)
K
keep_faces() (in module mindboggle.guts.mesh)
keep_volume_labels() (in module mindboggle.guts.relabel)
L
label_adjacency_matrix() (in module mindboggle.mio.colors)
label_colors (DKTprotocol attribute)
label_names (DKTprotocol attribute)
label_numbers (DKTprotocol attribute)
left_cerebellum_cortex_colors (DKTprotocol attribute)
left_cerebellum_cortex_list (DKTprotocol attribute)
left_cerebellum_cortex_names (DKTprotocol attribute)
left_cerebellum_cortex_numbers (DKTprotocol attribute)
left_cerebellum_names (DKTprotocol attribute)
left_cerebellum_noncortex_colors (DKTprotocol attribute)
left_cerebellum_noncortex_list (DKTprotocol attribute)
left_cerebellum_noncortex_names (DKTprotocol attribute)
left_cerebellum_noncortex_numbers (DKTprotocol attribute)
left_cerebellum_numbers (DKTprotocol attribute)
left_cerebrum_colors (DKTprotocol attribute)
left_cerebrum_cortex_colors (DKTprotocol attribute)
left_cerebrum_cortex_DKT31_colors (DKTprotocol attribute)
left_cerebrum_cortex_DKT31_list (DKTprotocol attribute)
left_cerebrum_cortex_DKT31_names (DKTprotocol attribute)
left_cerebrum_cortex_DKT31_numbers (DKTprotocol attribute)
left_cerebrum_cortex_list (DKTprotocol attribute)
left_cerebrum_cortex_names (DKTprotocol attribute)
left_cerebrum_cortex_numbers (DKTprotocol attribute)
left_cerebrum_names (DKTprotocol attribute)
left_cerebrum_noncortex_colors (DKTprotocol attribute)
left_cerebrum_noncortex_list (DKTprotocol attribute)
left_cerebrum_noncortex_names (DKTprotocol attribute)
left_cerebrum_noncortex_numbers (DKTprotocol attribute)
left_cerebrum_numbers (DKTprotocol attribute)
left_pair (DKTprotocol attribute)
left_pairs (DKTprotocol attribute)
left_sulcus_label_pair_lists (DKTprotocol attribute)
left_ventricle_colors (DKTprotocol attribute)
left_ventricle_list (DKTprotocol attribute)
left_ventricle_names (DKTprotocol attribute)
left_ventricle_numbers (DKTprotocol attribute)
list_strings() (in module mindboggle.guts.utilities)
lut_text() (in module mindboggle.thirdparty.FreeSurferColorLUT)
M
means_per_label() (in module mindboggle.guts.compute)
medial_cerebellum_noncortex_colors (DKTprotocol attribute)
medial_cerebellum_noncortex_list (DKTprotocol attribute)
medial_cerebellum_noncortex_names (DKTprotocol attribute)
medial_cerebellum_noncortex_numbers (DKTprotocol attribute)
medial_cerebrum_noncortex_colors (DKTprotocol attribute)
medial_cerebrum_noncortex_list (DKTprotocol attribute)
medial_cerebrum_noncortex_names (DKTprotocol attribute)
medial_cerebrum_noncortex_numbers (DKTprotocol attribute)
medial_ventricle_colors (DKTprotocol attribute)
medial_ventricle_list (DKTprotocol attribute)
medial_ventricle_names (DKTprotocol attribute)
medial_ventricle_numbers (DKTprotocol attribute)
median_abs_dev() (in module mindboggle.guts.compute)
mindboggle (module)
mindboggle.data (module)
mindboggle.data.data (module)
mindboggle.evaluate (module)
mindboggle.evaluate.evaluate_features (module)
mindboggle.evaluate.evaluate_labels (module)
mindboggle.evaluate.evaluate_shapes (module)
mindboggle.features (module)
mindboggle.features.folds (module)
mindboggle.features.fundi (module)
mindboggle.features.sulci (module)
mindboggle.guts (module)
mindboggle.guts.compute (module)
mindboggle.guts.kernels (module)
mindboggle.guts.mesh (module)
mindboggle.guts.paths (module)
mindboggle.guts.relabel (module)
mindboggle.guts.segment (module)
mindboggle.guts.utilities (module)
mindboggle.mio (module)
mindboggle.mio.colors (module)
mindboggle.mio.convert_volumes (module)
mindboggle.mio.fetch_data (module)
mindboggle.mio.labels (module)
mindboggle.mio.plots (module)
mindboggle.mio.tables (module)
mindboggle.mio.vtks (module)
mindboggle.shapes (module)
mindboggle.shapes.laplace_beltrami (module)
mindboggle.shapes.likelihood (module)
mindboggle.shapes.surface_shapes (module)
mindboggle.shapes.volume_shapes (module)
mindboggle.shapes.zernike (module)
mindboggle.shapes.zernike.zernike (module)
mindboggle.thirdparty (module)
mindboggle.thirdparty.ants (module)
mindboggle.thirdparty.FreeSurferColorLUT (module)
mindboggle.version (module)
misc_colors (DKTprotocol attribute)
misc_names (DKTprotocol attribute)
misc_numbers (DKTprotocol attribute)
N
n (DKTprotocol attribute)
names (DKTprotocol attribute)
numbers (DKTprotocol attribute)
O
overwrite_volume_labels() (in module mindboggle.guts.relabel)
P
pair (DKTprotocol attribute)
pair_list (DKTprotocol attribute)
pair_lists (DKTprotocol attribute)
pairwise_vector_distances() (in module mindboggle.guts.compute)
plot_mask_surface() (in module mindboggle.mio.plots)
plot_surfaces() (in module mindboggle.mio.plots)
plot_volumes() (in module mindboggle.mio.plots)
point_distance() (in module mindboggle.guts.compute)
prep_tests() (in module mindboggle.mio.fetch_data)
propagate() (in module mindboggle.guts.segment)
PropagateLabelsThroughMask() (in module mindboggle.thirdparty.ants)
R
rbf_kernel() (in module mindboggle.guts.kernels)
read_faces_points() (in module mindboggle.mio.vtks)
read_lines() (in module mindboggle.mio.vtks)
read_points() (in module mindboggle.mio.vtks)
read_scalars() (in module mindboggle.mio.vtks)
read_vertices() (in module mindboggle.mio.vtks)
read_vtk() (in module mindboggle.mio.vtks)
reindex_faces_0to1() (in module mindboggle.guts.mesh)
reindex_faces_points() (in module mindboggle.guts.mesh)
relabel (DKTprotocol attribute)
relabel_surface() (in module mindboggle.guts.relabel)
relabel_volume() (in module mindboggle.guts.relabel)
remove_neighbor_lists() (in module mindboggle.guts.mesh)
remove_volume_labels() (in module mindboggle.guts.relabel)
ResampleImageBySpacing() (in module mindboggle.thirdparty.ants)
rescale_by_label() (in module mindboggle.guts.mesh)
rescale_by_neighborhood() (in module mindboggle.guts.mesh)
return_numbers_names_colors() (DKTprotocol method)
(in module mindboggle.mio.labels)
rewrite_scalars() (in module mindboggle.mio.vtks)
right_cerebellum_cortex_colors (DKTprotocol attribute)
right_cerebellum_cortex_list (DKTprotocol attribute)
right_cerebellum_cortex_names (DKTprotocol attribute)
right_cerebellum_cortex_numbers (DKTprotocol attribute)
right_cerebellum_names (DKTprotocol attribute)
right_cerebellum_noncortex_colors (DKTprotocol attribute)
right_cerebellum_noncortex_list (DKTprotocol attribute)
right_cerebellum_noncortex_names (DKTprotocol attribute)
right_cerebellum_noncortex_numbers (DKTprotocol attribute)
right_cerebellum_numbers (DKTprotocol attribute)
right_cerebrum_colors (DKTprotocol attribute)
right_cerebrum_cortex_colors (DKTprotocol attribute)
right_cerebrum_cortex_DKT31_colors (DKTprotocol attribute)
right_cerebrum_cortex_DKT31_list (DKTprotocol attribute)
right_cerebrum_cortex_DKT31_names (DKTprotocol attribute)
right_cerebrum_cortex_DKT31_numbers (DKTprotocol attribute)
right_cerebrum_cortex_list (DKTprotocol attribute)
right_cerebrum_cortex_names (DKTprotocol attribute)
right_cerebrum_cortex_numbers (DKTprotocol attribute)
right_cerebrum_names (DKTprotocol attribute)
right_cerebrum_noncortex_colors (DKTprotocol attribute)
right_cerebrum_noncortex_list (DKTprotocol attribute)
right_cerebrum_noncortex_names (DKTprotocol attribute)
right_cerebrum_noncortex_numbers (DKTprotocol attribute)
right_cerebrum_numbers (DKTprotocol attribute)
right_pair (DKTprotocol attribute)
right_pairs (DKTprotocol attribute)
right_sulcus_label_pair_lists (DKTprotocol attribute)
right_ventricle_colors (DKTprotocol attribute)
right_ventricle_list (DKTprotocol attribute)
right_ventricle_names (DKTprotocol attribute)
right_ventricle_numbers (DKTprotocol attribute)
S
scalars_checker() (in module mindboggle.mio.vtks)
scatterplot_list_pairs() (in module mindboggle.mio.plots)
scatterplot_lists() (in module mindboggle.mio.plots)
segment_by_filling_borders() (in module mindboggle.guts.segment)
segment_by_region() (in module mindboggle.guts.segment)
segment_regions() (in module mindboggle.guts.segment)
segment_rings() (in module mindboggle.guts.segment)
select_column_from_mindboggle_tables() (in module mindboggle.mio.tables)
select_column_from_tables() (in module mindboggle.mio.tables)
select_largest() (in module mindboggle.guts.segment)
short_name() (in module mindboggle.mio.tables)
smooth_skeletons() (in module mindboggle.guts.paths)
source_to_target_distances() (in module mindboggle.guts.compute)
spectrum_from_file() (in module mindboggle.shapes.laplace_beltrami)
spectrum_of_largest() (in module mindboggle.shapes.laplace_beltrami)
spectrum_per_label() (in module mindboggle.shapes.laplace_beltrami)
split_brain() (in module mindboggle.guts.segment)
stats_per_label() (in module mindboggle.guts.compute)
sulcus_label_pair_lists (DKTprotocol attribute)
sulcus_names (DKTprotocol attribute)
sulcus_names_abbr (DKTprotocol attribute)
sulcus_numbers (DKTprotocol attribute)
sum_per_label() (in module mindboggle.guts.compute)
T
test_urls() (in module mindboggle.mio.fetch_data)
thickinthehead() (in module mindboggle.shapes.volume_shapes)
ThresholdImage() (in module mindboggle.thirdparty.ants)
topo_test() (in module mindboggle.guts.mesh)
track_segments() (in module mindboggle.guts.paths)
travel_depth() (in module mindboggle.shapes.surface_shapes)
U
unique_sulcus_label_pairs (DKTprotocol attribute)
V
vector_distance() (in module mindboggle.guts.compute)
ventricle_colors (DKTprotocol attribute)
ventricle_names (DKTprotocol attribute)
ventricle_numbers (DKTprotocol attribute)
viridis_colormap() (in module mindboggle.mio.colors)
volume_per_brain_region() (in module mindboggle.shapes.volume_shapes)
W
watershed() (in module mindboggle.guts.segment)
weighted_median() (in module mindboggle.guts.compute)
weighted_to_repeated_values() (in module mindboggle.guts.compute)
wesd() (in module mindboggle.shapes.laplace_beltrami)
write_average_face_values_per_label() (in module mindboggle.mio.tables)
write_face_vertex_averages() (in module mindboggle.mio.tables)
write_faces() (in module mindboggle.mio.vtks)
write_header() (in module mindboggle.mio.vtks)
write_json_colormap() (in module mindboggle.mio.colors)
write_lines() (in module mindboggle.mio.vtks)
write_points() (in module mindboggle.mio.vtks)
write_scalars() (in module mindboggle.mio.vtks)
write_shape_stats() (in module mindboggle.mio.tables)
write_vertex_measures() (in module mindboggle.mio.tables)
write_vertices() (in module mindboggle.mio.vtks)
write_vtk() (in module mindboggle.mio.vtks)
write_xml_colormap() (in module mindboggle.mio.colors)
X
x (DKTprotocol attribute)
xyz2nii() (in module mindboggle.mio.convert_volumes)
Z
zernike_moments() (in module mindboggle.shapes.zernike.zernike)
zernike_moments_per_label() (in module mindboggle.shapes.zernike.zernike)
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