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Index

A | B | C | D | E | F | G | H | I | J | L | M | N | O | P | Q | R | S | T | U | V | W

A

abc() (in module dipy.boots.resampling)
add() (in module dipy.viz.fvtk)
Affine matrix
Affine transformation
affine_from_fsl_mat_file() (in module dipy.tracking.utils)
angular_similarity() (in module dipy.core.sphere_stats)
annotatePick() (in module dipy.viz.fvtk)
approx_polygon_track() (in module dipy.tracking.distances)
approximate_mdl_trajectory() (in module dipy.tracking.distances)
arbitrarypoint() (in module dipy.tracking.metrics)
axes() (in module dipy.viz.fvtk)
axial_diffusivity() (in module dipy.reconst.dti)
Axis angle

B

bootstrap() (in module dipy.boots.resampling)
bootstrap_data_array() (in module dipy.reconst.shm)
bootstrap_data_voxel() (in module dipy.reconst.shm)
BoundaryStepper (class in dipy.tracking.markov)
bs_se() (in module dipy.boots.resampling)
bundles_distances_mam() (in module dipy.tracking.distances)
bundles_distances_mdf() (in module dipy.tracking.distances)
bytes() (in module dipy.tracking.metrics)

C

CallableArray (class in dipy.reconst.multi_voxel)
cart2sphere() (in module dipy.core.geometry)
cart_distance() (in module dipy.core.geometry)
CDT_NNO (class in dipy.tracking.markov)
center_of_mass() (in module dipy.tracking.metrics)
circumradius() (in module dipy.core.geometry)
clear() (in module dipy.viz.fvtk)
color_fa() (in module dipy.reconst.dti)
compare_orientation_sets() (in module dipy.core.sphere_stats)
compose_matrix() (in module dipy.core.geometry)
connectivity_matrix() (in module dipy.tracking.utils)
contour() (in module dipy.viz.fvtk)
copy() (dipy.reconst.maskedview.MaskedView method)
create_colormap() (in module dipy.viz.fvtk)
create_displacements() (in module dipy.external.fsl)
create_qspace() (in module dipy.reconst.dsi)
create_qtable() (in module dipy.reconst.dsi)
create_unit_hemisphere() (in module dipy.core.subdivide_octahedron)
create_unit_sphere() (in module dipy.core.subdivide_octahedron)
crossing() (in module dipy.viz.fvtk)
CsaOdfModel (class in dipy.reconst.shm)
cut_plane() (in module dipy.tracking.distances)

D

D (dipy.reconst.dti.Tensor attribute)
decompose_matrix() (in module dipy.core.geometry)
decompose_tensor() (in module dipy.reconst.dti)
density_map() (in module dipy.tracking.utils)
design_matrix() (in module dipy.reconst.dti)
detect_corresponding_tracks() (in module dipy.tracking.learning)
detect_corresponding_tracks_plus() (in module dipy.tracking.learning)
dipy.align.aniso2iso (module)
dipy.boots.resampling (module)
dipy.core (module)
dipy.core.geometry (module)
dipy.core.gradients (module)
dipy.core.graph (module)
dipy.core.profile (module)
dipy.core.rng (module)
dipy.core.sphere (module)
dipy.core.sphere_stats (module)
dipy.core.subdivide_octahedron (module)
dipy.data (module)
dipy.external (module)
dipy.external.fsl (module)
dipy.io (module)
dipy.io.bvectxt (module)
dipy.io.dpy (module)
dipy.io.gradients (module)
dipy.io.pickles (module)
dipy.reconst.dsi (module)
dipy.reconst.dti (module)
dipy.reconst.gqi (module)
dipy.reconst.maskedview (module)
dipy.reconst.modelarray (module)
dipy.reconst.multi_voxel (module)
dipy.reconst.odf (module)
dipy.reconst.shm (module)
dipy.tracking.distances (module)
dipy.tracking.eudx (module)
dipy.tracking.learning (module)
dipy.tracking.markov (module)
dipy.tracking.metrics (module)
dipy.tracking.propspeed (module)
dipy.tracking.utils (module)
dipy.tracking.vox2track (module)
dipy.viz.fvtk (module)
dots() (in module dipy.viz.fvtk)
downsample() (in module dipy.tracking.metrics)

E

eigenstats() (in module dipy.core.sphere_stats)
endpoint() (in module dipy.tracking.metrics)
equatorial_zone_vertices() (in module dipy.reconst.gqi)
Euclidean norm
EuDX (class in dipy.tracking.eudx)
eudx_both_directions() (in module dipy.tracking.propspeed)
Euler angles
euler_matrix() (in module dipy.core.geometry)

F

fa() (dipy.reconst.dti.Tensor method)
faces_from_sphere_vertices() (in module dipy.core.sphere)
filled() (dipy.reconst.maskedview.MaskedView method)
fit() (dipy.reconst.dti.TensorModel method)
(dipy.reconst.odf.OdfModel method)
(dipy.reconst.shm.SphHarmModel method)
FixedSizeStepper (class in dipy.tracking.markov)
flirt2aff() (in module dipy.external.fsl)
flirt2aff_files() (in module dipy.external.fsl)
fractional_anisotropy() (in module dipy.reconst.dti)
frenet_serret() (in module dipy.tracking.metrics)
from_lower_triangular() (in module dipy.reconst.dti)
from_sphere() (dipy.core.sphere.HemiSphere class method)
FSLError

G

gen_PSF() (in module dipy.reconst.dsi)
generate_combinations() (in module dipy.tracking.metrics)
get_data() (in module dipy.data)
get_sim_voxels() (in module dipy.data)
get_size() (dipy.reconst.maskedview.MaskedView method)
get_skeleton() (in module dipy.data)
get_sphere() (in module dipy.data)
gfa() (in module dipy.reconst.odf)
Gimbal lock
gradient_table() (in module dipy.core.gradients)
gradient_table_from_bvals_bvecs() (in module dipy.core.gradients)
GradientTable (class in dipy.core.gradients)
Graph (class in dipy.core.graph)

H

half_to_full_qspace() (in module dipy.reconst.dsi)
hanning_filter() (in module dipy.reconst.dsi)
hat() (in module dipy.reconst.shm)
have_flirt() (in module dipy.external.fsl)
HemiSphere (class in dipy.core.sphere)
Homogenous coordinates

I

ind() (dipy.reconst.dti.Tensor method)
inside_sphere() (in module dipy.tracking.metrics)
inside_sphere_points() (in module dipy.tracking.metrics)
intersect_segment_cylinder() (in module dipy.tracking.distances)
intersect_sphere() (in module dipy.tracking.metrics)

J

jackknife() (in module dipy.boots.resampling)

L

label() (in module dipy.viz.fvtk)
lambert_equal_area_projection_cart() (in module dipy.core.geometry)
lambert_equal_area_projection_polar() (in module dipy.core.geometry)
larch_3merge() (in module dipy.tracking.distances)
larch_3split() (in module dipy.tracking.distances)
lazy_index() (in module dipy.reconst.shm)
lcr_matrix() (in module dipy.reconst.shm)
LEcuyer() (in module dipy.core.rng)
lee_angle_distance() (in module dipy.tracking.distances)
lee_perpendicular_distance() (in module dipy.tracking.distances)
length() (in module dipy.tracking.metrics)
(in module dipy.tracking.utils)
line() (in module dipy.viz.fvtk)
Linear transformation
load_pickle() (in module dipy.io.pickles)
local_skeleton_clustering() (in module dipy.tracking.distances)
local_skeleton_clustering_3pts() (in module dipy.tracking.distances)
longest_track_bundle() (in module dipy.tracking.metrics)
lower_triangular() (in module dipy.reconst.dti)
LR_deconv() (in module dipy.reconst.dsi)

M

magn() (in module dipy.tracking.metrics)
mam_distances() (in module dipy.tracking.distances)
map_coordinates_trilinear_iso() (in module dipy.tracking.propspeed)
markov_streamline() (in module dipy.tracking.markov)
MarkovIntegrator (class in dipy.tracking.markov)
mask (dipy.reconst.modelarray.ModelArray attribute)
MaskedView (class in dipy.reconst.maskedview)
md() (dipy.reconst.dti.Tensor method)
mean_curvature() (in module dipy.tracking.metrics)
mean_diffusivity() (in module dipy.reconst.dti)
mean_orientation() (in module dipy.tracking.metrics)
merge_streamlines() (in module dipy.tracking.utils)
midpoint() (in module dipy.tracking.metrics)
midpoint2point() (in module dipy.tracking.metrics)
minimum_closest_distance() (in module dipy.tracking.distances)
mirror() (dipy.core.sphere.HemiSphere method)
model_params (dipy.reconst.modelarray.ModelArray attribute)
ModelArray (class in dipy.reconst.modelarray)
most_similar_track_mam() (in module dipy.tracking.distances)
move_streamlines() (in module dipy.tracking.utils)
mrtrix_spherical_functions() (in module dipy.data)
multi_voxel_model() (in module dipy.reconst.multi_voxel)
MultiVoxelFit (class in dipy.reconst.multi_voxel)

N

ndarray_offset() (in module dipy.tracking.propspeed)
ndbincount() (in module dipy.tracking.utils)
ndim (dipy.reconst.modelarray.ModelArray attribute)
nearest_pos_semi_def() (in module dipy.core.geometry)
norm_3vec() (in module dipy.tracking.distances)
normalize_data() (in module dipy.reconst.shm)
normalize_qa() (in module dipy.reconst.gqi)
normalized_3vec() (in module dipy.tracking.distances)
normalized_vector() (in module dipy.core.geometry)
npa() (in module dipy.reconst.gqi)

O

odf() (dipy.reconst.shm.SphHarmFit method)
OdfModel (class in dipy.reconst.odf)
ols_fit_tensor() (in module dipy.reconst.dti)
OpdtModel (class in dipy.reconst.shm)
orientation_from_string() (in module dipy.io.bvectxt)
orientation_to_string() (in module dipy.io.bvectxt)
ornt_mapping() (in module dipy.io.bvectxt)

P

patch_vertices() (in module dipy.reconst.gqi)
pdf_interp_coords() (in module dipy.reconst.dsi)
pdf_odf() (in module dipy.reconst.dsi)
peak_directions() (in module dipy.reconst.odf)
peak_directions_nl() (in module dipy.reconst.odf)
peaks_from_model() (in module dipy.reconst.odf)
pipe() (in module dipy.external.fsl)
point_segment_sq_distance() (in module dipy.tracking.distances)
point_track_sq_distance_check() (in module dipy.tracking.distances)
polar_zone_vertices() (in module dipy.reconst.gqi)
principal_components() (in module dipy.tracking.metrics)
print_stats() (dipy.core.profile.Profiler method)
ProbabilisticOdfWeightedTracker (class in dipy.tracking.markov)
Profiler (class in dipy.core.profile)
project_hemisph_bvecs() (in module dipy.reconst.dsi)

Q

QballModel (class in dipy.reconst.shm)
quantize_evecs() (in module dipy.reconst.dti)
Quaternion

R

radial_diffusivity() (in module dipy.reconst.dti)
randint() (in module dipy.reconst.shm)
random_uniform_on_sphere() (in module dipy.core.sphere_stats)
read_btable() (in module dipy.io.gradients)
read_bvals_bvecs() (in module dipy.io.gradients)
read_bvec_file() (in module dipy.io.bvectxt)
real_sph_harm() (in module dipy.reconst.shm)
real_sph_harm_fibernav() (in module dipy.reconst.shm)
real_sph_harm_mrtrix() (in module dipy.reconst.shm)
record() (in module dipy.viz.fvtk)
reduce_labels() (in module dipy.tracking.utils)
Reflection
ren() (in module dipy.viz.fvtk)
reorder_voxels_affine() (in module dipy.tracking.utils)
reorient_vectors() (in module dipy.io.bvectxt)
resample() (in module dipy.align.aniso2iso)
reset_cache() (dipy.tracking.markov.CDT_NNO method)
ResidualBootstrapWrapper (class in dipy.reconst.shm)
rm() (in module dipy.viz.fvtk)
rm_all() (in module dipy.viz.fvtk)
rodriguez_axis_rotation() (in module dipy.core.geometry)
Rotation matrix
Rotation vector
run_flirt_imgs() (in module dipy.external.fsl)

S

save_pickle() (in module dipy.io.pickles)
seeds_from_mask() (in module dipy.tracking.utils)
sf_to_sh() (in module dipy.reconst.shm)
sh_to_sf() (in module dipy.reconst.shm)
shape (dipy.reconst.modelarray.ModelArray attribute)
Shear matrix
show() (in module dipy.viz.fvtk)
slicer() (in module dipy.viz.fvtk)
smooth_pinv() (in module dipy.reconst.shm)
sph2latlon() (in module dipy.core.geometry)
sph_harm_ind_list() (in module dipy.reconst.shm)
Sphere (class in dipy.core.sphere)
sphere() (in module dipy.viz.fvtk)
sphere2cart() (in module dipy.core.geometry)
sphere_distance() (in module dipy.core.geometry)
sphere_funcs() (in module dipy.viz.fvtk)
SphHarmFit (class in dipy.reconst.shm)
SphHarmModel (class in dipy.reconst.shm)
spline() (in module dipy.tracking.metrics)
squared_radial_component() (in module dipy.reconst.gqi)
startpoint() (in module dipy.tracking.metrics)
streamline_mapping() (in module dipy.tracking.utils)
subdivide() (dipy.core.sphere.HemiSphere method)
(dipy.core.sphere.Sphere method)
subsegment() (in module dipy.tracking.utils)

T

target() (in module dipy.tracking.utils)
Tensor (class in dipy.reconst.dti)
tensor_eig_from_lo_tri() (in module dipy.reconst.dti)
TensorModel (class in dipy.reconst.dti)
threshold_propagator() (in module dipy.reconst.dsi)
trace() (in module dipy.reconst.dti)
track_counts() (in module dipy.tracking.vox2track)
track_dist_3pts() (in module dipy.tracking.distances)
track_roi_intersection_check() (in module dipy.tracking.distances)
tube() (in module dipy.viz.fvtk)

U

unique_edges() (in module dipy.core.sphere)
Unit vector
upper_hemi_map() (in module dipy.reconst.gqi)

V

vec2vec_rotmat() (in module dipy.core.geometry)
vector_cosine() (in module dipy.core.geometry)
vector_norm() (in module dipy.core.geometry)
volume() (in module dipy.viz.fvtk)

W

warp_displacements() (in module dipy.external.fsl)
warp_displacements_tracks() (in module dipy.external.fsl)
WichmannHill1982() (in module dipy.core.rng)
WichmannHill2006() (in module dipy.core.rng)
winding() (in module dipy.tracking.metrics)
wls_fit_tensor() (in module dipy.reconst.dti)
write_bvals_bvecs() (in module dipy.external.fsl)