Index

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

_

__init__() (nipy.algorithms.fwhm.fastFWHM method)
(nipy.algorithms.fwhm.ReselImage method)
(nipy.algorithms.fwhm.Resels method)
(nipy.algorithms.fwhm.iterFWHM method)
(nipy.algorithms.interpolation.ImageInterpolator method)
(nipy.algorithms.kernel_smooth.LinearFilter method)
(nipy.algorithms.statistics.classification.Classifier method)
(nipy.algorithms.statistics.nlsmodel.NLSModel method)
(nipy.algorithms.statistics.regression.AREstimator method)
(nipy.algorithms.statistics.regression.ArrayOutput method)
(nipy.algorithms.statistics.regression.RegressionOutput method)
(nipy.algorithms.statistics.regression.RegressionOutputList method)
(nipy.algorithms.statistics.regression.TOutput method)
(nipy.algorithms.statistics.rft.ChiBarSquared method)
(nipy.algorithms.statistics.rft.ChiSquared method)
(nipy.algorithms.statistics.rft.ECcone method)
(nipy.algorithms.statistics.rft.ECquasi method)
(nipy.algorithms.statistics.rft.FStat method)
(nipy.algorithms.statistics.rft.Hotelling method)
(nipy.algorithms.statistics.rft.IntrinsicVolumes method)
(nipy.algorithms.statistics.rft.MultilinearForm method)
(nipy.algorithms.statistics.rft.OneSidedF method)
(nipy.algorithms.statistics.rft.Roy method)
(nipy.algorithms.statistics.rft.TStat method)
(nipy.algorithms.statistics.rft.fnsum method)
(nipy.core.image.image.Image method)
(nipy.core.image.image_list.ImageList method)
(nipy.core.image.roi.ContinuousROI method)
(nipy.core.image.roi.CoordinateMapROI method)
(nipy.core.image.roi.DiscreteROI method)
(nipy.core.image.roi.ROI method)
(nipy.core.image.roi.ROISequence method)
(nipy.core.image.roi.ROIall method)
(nipy.core.reference.array_coords.ArrayCoordMap method)
(nipy.core.reference.array_coords.Grid method)
(nipy.core.reference.coordinate_map.Affine method)
(nipy.core.reference.coordinate_map.CoordinateMap method)
(nipy.core.reference.coordinate_system.CoordinateSystem method)
(nipy.io.datasource.Cache method)
(nipy.io.datasource.DataSource method)
(nipy.io.datasource.Repository method)
(nipy.io.pyniftiio.PyNiftiIO method)
(nipy.modalities.fmri.filters.FIR method)
(nipy.modalities.fmri.filters.Filter method)
(nipy.modalities.fmri.filters.GammaCOMB method)
(nipy.modalities.fmri.filters.GammaDENS method)
(nipy.modalities.fmri.filters.GammaHRF method)
(nipy.modalities.fmri.fmri.FmriImageList method)
(nipy.modalities.fmri.fmristat.delay.DelayContrast method)
(nipy.modalities.fmri.fmristat.delay.DelayContrastOutput method)
(nipy.modalities.fmri.fmristat.delay.DelayHRF method)
(nipy.modalities.fmri.fmristat.model.AR1 method)
(nipy.modalities.fmri.fmristat.model.ModelOutputImage method)
(nipy.modalities.fmri.fmristat.model.OLS method)
(nipy.modalities.fmri.fmristat.npzimage.NPZBuffer method)
(nipy.modalities.fmri.fmristat.utils.WholeBrainNormalize method)
(nipy.modalities.fmri.functions.DeltaFunction method)
(nipy.modalities.fmri.functions.Events method)
(nipy.modalities.fmri.functions.InterpolatedConfound method)
(nipy.modalities.fmri.functions.PeriodicStimulus method)
(nipy.modalities.fmri.functions.SplineConfound method)
(nipy.modalities.fmri.functions.Stimulus method)
(nipy.modalities.fmri.hrf.SpectralHRF method)
(nipy.modalities.fmri.pca.PCA method)
(nipy.modalities.fmri.protocol.ExperimentalFactor method)
(nipy.modalities.fmri.protocol.ExperimentalFormula method)
(nipy.modalities.fmri.protocol.ExperimentalQuantitative method)
(nipy.modalities.fmri.protocol.ExperimentalRegressor method)
(nipy.modalities.fmri.protocol.ExperimentalStepFunction method)
(nipy.modalities.fmri.utils.CutPoly method)
(nipy.modalities.fmri.utils.LinearInterpolant method)
(nipy.modalities.fmri.utils.WaveFunction method)
(nipy.neurospin.clustering.GGMixture.GGGM method)
(nipy.neurospin.clustering.GGMixture.GGM method)
(nipy.neurospin.clustering.GGMixture.Gamma method)
(nipy.neurospin.clustering.gmm.BGMM method)
(nipy.neurospin.clustering.gmm.GMM method)
(nipy.neurospin.clustering.gmm.grid_descriptor method)
(nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
(nipy.neurospin.eda.dimension_reduction.MDS method)
(nipy.neurospin.eda.dimension_reduction.NLDR method)
(nipy.neurospin.eda.dimension_reduction.eps_Isomap method)
(nipy.neurospin.eda.dimension_reduction.knn_Isomap method)
(nipy.neurospin.eda.dimension_reduction.knn_LE method)
(nipy.neurospin.eda.dimension_reduction.knn_LPP method)
(nipy.neurospin.glm.glm.contrast method)
(nipy.neurospin.glm.glm.glm method)
(nipy.neurospin.graph.field.Field method)
(nipy.neurospin.graph.graph.BipartiteGraph method)
(nipy.neurospin.graph.graph.Forest method)
(nipy.neurospin.graph.graph.Graph method)
(nipy.neurospin.graph.graph.WeightedGraph method)
(nipy.neurospin.graph.hroi.HROI method)
(nipy.neurospin.graph.hroi.NROI method)
(nipy.neurospin.graph.hroi.ROI_Hierarchy method)
(nipy.neurospin.group.displacement_field.displacement_field method)
(nipy.neurospin.group.displacement_field.gaussian_random_field method)
(nipy.neurospin.group.permutation_test.permutation_test_onesample method)
(nipy.neurospin.group.permutation_test.permutation_test_onesample_graph method)
(nipy.neurospin.group.permutation_test.permutation_test_twosample method)
(nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
(nipy.neurospin.neuro.fmri.mini_designmatrix.MiniHRF method)
(nipy.neurospin.neuro.fmri.realign4d.Realign4d method)
(nipy.neurospin.neuro.image_classes.fmri_image method)
(nipy.neurospin.neuro.image_classes.image method)
(nipy.neurospin.neuro.linear_model.linear_model method)
(nipy.neurospin.registration.registration.iconic method)
(nipy.neurospin.spatial_models.parcellation.Parcellation method)
(nipy.neurospin.spatial_models.structural_bfls.Amers method)
(nipy.neurospin.utils.emp_null.ENN method)
(nipy.neurospin.utils.emp_null.FDR method)
(nipy.neurospin.utils.nosetester.NoseTester method)
(nipy.neurospin.utils.roi.MultipleROI method)
(nipy.neurospin.utils.roi.ROI method)
(nipy.neurospin.utils.roi.WeightedROI method)
(nipy.utils.path.TreeWalkWarning method)
(nipy.utils.path.path method)

A

abspath() (nipy.utils.path.path method)
access() (nipy.utils.path.path method)
add_subjects() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
adjacency() (nipy.neurospin.graph.graph.Graph method)
(nipy.neurospin.graph.graph.WeightedGraph method)
affect_inmask() (in module nipy.neurospin.neuro.linear_model)
Affine (class in nipy.core.reference.coordinate_map)
affine (nipy.core.image.image.Image attribute)
(nipy.core.reference.coordinate_map.Affine attribute)
(nipy.io.pyniftiio.PyNiftiIO attribute)
affine_registration() (in module nipy.neurospin.neuro.affine_registration)
AFNI
all_distances() (nipy.neurospin.graph.graph.Forest method)
all_fdr() (nipy.neurospin.utils.emp_null.FDR method)
all_fdr_from_pvals() (nipy.neurospin.utils.emp_null.FDR method)
Amers (class in nipy.neurospin.spatial_models.structural_bfls)
anti_symmeterize() (nipy.neurospin.graph.graph.WeightedGraph method)
append() (nipy.modalities.fmri.functions.Events method)
append_balls() (nipy.neurospin.utils.roi.MultipleROI method)
AR1 (class in nipy.modalities.fmri.fmristat.model)
AREstimator (class in nipy.algorithms.statistics.regression)
argmax() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
ArrayCoordMap (class in nipy.core.reference.array_coords)
ArrayOutput (class in nipy.algorithms.statistics.regression)
as_multiple_balls() (nipy.neurospin.utils.roi.MultipleROI method)
assess_divergence() (nipy.neurospin.clustering.gmm.GMM method)
atime (nipy.utils.path.path attribute)
average_feature() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
Average_Link_Distance() (in module nipy.neurospin.clustering.hierarchical_clustering)
Average_Link_Distance_segment() (in module nipy.neurospin.clustering.hierarchical_clustering)
Average_Link_Euclidian() (in module nipy.neurospin.clustering.hierarchical_clustering)
Average_Link_Graph() (in module nipy.neurospin.clustering.hierarchical_clustering)
Average_Link_Graph_segment() (in module nipy.neurospin.clustering.hierarchical_clustering)

B

ball_search() (in module nipy.algorithms.statistics.rft)
basename() (nipy.utils.path.path method)
bench() (nipy.neurospin.utils.nosetester.NoseTester method)
BGMM (class in nipy.neurospin.clustering.gmm)
BIC() (nipy.neurospin.clustering.gmm.GMM method)
binomial() (in module nipy.algorithms.statistics.rft)
BipartiteGraph (class in nipy.neurospin.graph.graph)
block_voxel_transform() (nipy.neurospin.registration.registration.iconic method)
BOLD
bonferroni() (in module nipy.neurospin.neuro.statistical_test)
bounding_box() (in module nipy.core.reference.slices)
boxplot_feature() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
BPmatch() (in module nipy.neurospin.graph.BPmatch)
BPmatch_slow() (in module nipy.neurospin.graph.BPmatch)
BPmatch_slow_asym() (in module nipy.neurospin.graph.BPmatch)
BPmatch_slow_asym_dep() (in module nipy.neurospin.graph.BPmatch)
BPmatch_slow_asym_dev() (in module nipy.neurospin.graph.BPmatch)
BrainVisa
BSD
Build_Amers() (in module nipy.neurospin.spatial_models.structural_bfls)
bytes() (nipy.utils.path.path method)

C

Cache (class in nipy.io.datasource)
cache() (nipy.io.datasource.Cache method)
(nipy.io.datasource.DataSource method)
calibrate() (nipy.neurospin.group.permutation_test.permutation_test method)
cartesian_smoothing() (in module nipy.neurospin.utils.smoothing)
cc() (nipy.neurospin.graph.graph.Graph method)
CCA() (in module nipy.neurospin.eda.dimension_reduction)
center() (nipy.neurospin.spatial_models.structural_bfls.Amers method)
change_exponent() (nipy.algorithms.statistics.rft.ECquasi method)
check() (nipy.neurospin.clustering.GGMixture.Gamma method)
(nipy.neurospin.clustering.GGMixture.GGGM method)
(nipy.neurospin.clustering.GGMixture.GGM method)
(nipy.neurospin.clustering.gmm.GMM method)
(nipy.neurospin.graph.graph.Forest method)
(nipy.neurospin.graph.hroi.ROI_Hierarchy method)
(nipy.neurospin.spatial_models.parcellation.Parcellation method)
check_compatible_height() (nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
check_data() (nipy.neurospin.clustering.gmm.GMM method)
(nipy.neurospin.eda.dimension_reduction.NLDR method)
check_deps() (in module nipy.utils.perlpie)
check_feature_matrices() (nipy.neurospin.graph.graph.BipartiteGraph method)
check_features() (nipy.neurospin.utils.roi.MultipleROI method)
check_header() (nipy.neurospin.utils.roi.MultipleROI method)
(nipy.neurospin.utils.roi.ROI method)
check_isometry() (in module nipy.neurospin.eda.dimension_reduction)
check_priors() (nipy.neurospin.clustering.gmm.BGMM method)
check_pv() (nipy.neurospin.utils.emp_null.FDR method)
check_smoothing() (in module nipy.neurospin.utils.smoothing)
ChiBarSquared (class in nipy.algorithms.statistics.rft)
ChiSquared (class in nipy.algorithms.statistics.rft)
chmod() (nipy.utils.path.path method)
chown() (nipy.utils.path.path method)
chroot() (nipy.utils.path.path method)
Classifier (class in nipy.algorithms.statistics.classification)
clean() (nipy.neurospin.graph.hroi.NROI method)
(nipy.neurospin.graph.hroi.ROI_Hierarchy method)
(nipy.neurospin.utils.roi.MultipleROI method)
clean_density() (in module nipy.neurospin.spatial_models.structural_bfls)
clean_density_redraw() (in module nipy.neurospin.spatial_models.structural_bfls)
clear() (nipy.io.datasource.Cache method)
cliques() (nipy.neurospin.graph.graph.WeightedGraph method)
closing() (nipy.neurospin.graph.field.Field method)
cluster_stats() (in module nipy.neurospin.neuro.statistical_test)
coerce2nifti() (in module nipy.io.files)
coerce_coordmap() (in module nipy.io.nifti_ref)
combinations() (in module nipy.algorithms.statistics.utils)
compatible() (nipy.algorithms.statistics.rft.ECquasi method)
complete() (nipy.neurospin.graph.graph.Graph method)
(nipy.neurospin.graph.graph.WeightedGraph method)
complete_feature() (nipy.neurospin.utils.roi.MultipleROI method)
complex() (in module nipy.algorithms.statistics.utils)
component_likelihood() (nipy.neurospin.clustering.GGMixture.GGGM method)
compose() (in module nipy.core.reference.coordinate_map)
Compute_Amers() (in module nipy.neurospin.spatial_models.structural_bfls)
compute_c() (in module nipy.neurospin.clustering.GGMixture)
compute_children() (nipy.neurospin.graph.graph.Forest method)
compute_cluster_stats() (in module nipy.neurospin.group.permutation_test)
compute_density() (in module nipy.neurospin.spatial_models.structural_bfls)
compute_density_dev() (in module nipy.neurospin.spatial_models.structural_bfls)
compute_inner_blocks() (nipy.neurospin.group.displacement_field.displacement_field method)
compute_log_likelihood_regionwise() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
compute_log_posterior() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
compute_log_prior() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
compute_mask() (in module nipy.neurospin.utils.mask)
compute_mask_files() (in module nipy.neurospin.utils.mask)
compute_mask_intra() (in module nipy.neurospin.utils.mask)
compute_mask_intra_array() (in module nipy.neurospin.utils.mask)
compute_mask_sessions() (in module nipy.neurospin.utils.mask)
compute_matrix() (nipy.modalities.fmri.fmristat.delay.DelayContrast method)
compute_region_stat() (in module nipy.neurospin.group.permutation_test)
compute_size() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
compute_surrogate_density() (in module nipy.neurospin.spatial_models.structural_bfls)
compute_surrogate_density_dev() (in module nipy.neurospin.spatial_models.structural_bfls)
computeMaskIntra() (in module nipy.neurospin.utils.mask)
computeMaskIntraArray() (in module nipy.neurospin.utils.mask)
concatenate_graphs() (in module nipy.neurospin.graph.graph)
cone() (in module nipy.neurospin.utils.simul_2d_multisubject_fmri_dataset)
confidence_region() (nipy.neurospin.spatial_models.structural_bfls.Amers method)
constrained_voronoi() (nipy.neurospin.graph.field.Field method)
ContinuousROI (class in nipy.core.image.roi)
contrast (class in nipy.neurospin.glm.glm)
contrast() (nipy.neurospin.glm.glm.glm method)
(nipy.neurospin.neuro.linear_model.linear_model method)
converse_edge() (nipy.neurospin.graph.graph.WeightedGraph method)
convolve() (nipy.modalities.fmri.filters.Filter method)
(nipy.modalities.fmri.protocol.ExperimentalRegressor method)
convolved (nipy.modalities.fmri.protocol.ExperimentalRegressor attribute)
ConvolveFunctions() (in module nipy.modalities.fmri.utils)
coord_dtype (nipy.core.reference.coordinate_system.CoordinateSystem attribute)
coord_names (nipy.core.reference.coordinate_system.CoordinateSystem attribute)
CoordinateMap (class in nipy.core.reference.coordinate_map)
CoordinateMapROI (class in nipy.core.image.roi)
CoordinateSystem (class in nipy.core.reference.coordinate_system)
coordmap (nipy.core.image.image.Image attribute)
coordmap4io() (in module nipy.io.nifti_ref)
coordmap_from_ioimg() (in module nipy.io.nifti_ref)
copy() (nipy.core.reference.coordinate_map.Affine method)
(nipy.core.reference.coordinate_map.CoordinateMap method)
(nipy.neurospin.graph.field.Field method)
(nipy.neurospin.graph.graph.BipartiteGraph method)
(nipy.neurospin.graph.graph.WeightedGraph method)
(nipy.neurospin.graph.hroi.ROI_Hierarchy method)
(nipy.neurospin.spatial_models.parcellation.Parcellation method)
(nipy.utils.path.path method)
copy2() (nipy.utils.path.path method)
copyfile() (nipy.utils.path.path method)
copymode() (nipy.utils.path.path method)
copystat() (nipy.utils.path.path method)
copytree() (nipy.utils.path.path method)
correct_motion() (nipy.neurospin.neuro.fmri.realign4d.Realign4d method)
create_npz() (in module nipy.modalities.fmri.fmristat.npzimage)
cross_eps() (nipy.neurospin.graph.graph.BipartiteGraph method)
cross_eps_robust() (nipy.neurospin.graph.graph.BipartiteGraph method)
cross_knn() (nipy.neurospin.graph.graph.BipartiteGraph method)
ctime (nipy.utils.path.path attribute)
cube_with_strides_center() (in module nipy.algorithms.statistics.utils)
custom_watershed() (nipy.neurospin.graph.field.Field method)
cut_redundancies() (nipy.neurospin.graph.graph.WeightedGraph method)
CutPoly (class in nipy.modalities.fmri.utils)

D

data_generator() (in module nipy.core.image.generators)
DataSource (class in nipy.io.datasource)
decompose2d() (in module nipy.algorithms.statistics.utils)
decompose3d() (in module nipy.algorithms.statistics.utils)
default_subsampling() (in module nipy.neurospin.neuro.affine_registration)
define_graph_attributes() (nipy.neurospin.graph.graph.Forest method)
degrees() (nipy.neurospin.graph.graph.Graph method)
DelayContrast (class in nipy.modalities.fmri.fmristat.delay)
DelayContrastOutput (class in nipy.modalities.fmri.fmristat.delay)
DelayHRF (class in nipy.modalities.fmri.fmristat.delay)
DeltaFunction (class in nipy.modalities.fmri.functions)
deltaPCA() (nipy.modalities.fmri.fmristat.delay.DelayHRF method)
(nipy.modalities.fmri.hrf.SpectralHRF method)
demo_ward_msb() (in module nipy.neurospin.clustering.bootstrap_hc)
denom_poly() (nipy.algorithms.statistics.rft.ECquasi method)
density() (nipy.algorithms.statistics.rft.ECcone method)
depth_from_leaves() (nipy.neurospin.graph.graph.Forest method)
deriv() (nipy.algorithms.statistics.rft.ECquasi method)
(nipy.modalities.fmri.filters.GammaCOMB method)
(nipy.modalities.fmri.filters.GammaDENS method)
(nipy.modalities.fmri.filters.GammaHRF method)
derivParams() (nipy.neurospin.neuro.fmri.mini_designmatrix.MiniHRF method)
dichopsi_log() (in module nipy.neurospin.clustering.GGMixture)
diffusion() (nipy.neurospin.graph.field.Field method)
dijkstra() (nipy.neurospin.graph.graph.WeightedGraph method)
dilation() (nipy.neurospin.graph.field.Field method)
diminfo (nipy.io.pyniftiio.PyNiftiIO attribute)
dirname() (nipy.utils.path.path method)
dirs() (nipy.utils.path.path method)
DiscreteROI (class in nipy.core.image.roi)
displacement_field (class in nipy.neurospin.group.displacement_field)
display_norm_contour_manyfilenames() (in module nipy.neurospin.neuro.slices_ploter)
drive (nipy.utils.path.path attribute)
DTI
dtype (nipy.core.reference.coordinate_system.CoordinateSystem attribute)
dump() (nipy.neurospin.neuro.linear_model.linear_model method)
DWI

E

ECcone (class in nipy.algorithms.statistics.rft)
ECquasi (class in nipy.algorithms.statistics.rft)
EDistance() (in module nipy.neurospin.graph.BPmatch)
EEGlab
empty_parcels() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
ENN (class in nipy.neurospin.utils.emp_null)
ensuredirs() (in module nipy.io.datasource)
eps() (nipy.neurospin.graph.graph.WeightedGraph method)
eps_Isomap (class in nipy.neurospin.eda.dimension_reduction)
erosion() (nipy.neurospin.graph.field.Field method)
Estep() (nipy.neurospin.clustering.GGMixture.GGGM method)
(nipy.neurospin.clustering.GGMixture.GGM method)
estimate() (nipy.neurospin.clustering.GGMixture.Gamma method)
(nipy.neurospin.clustering.GGMixture.GGGM method)
(nipy.neurospin.clustering.GGMixture.GGM method)
(nipy.neurospin.clustering.gmm.GMM method)
estimate_mean() (in module nipy.algorithms.statistics.onesample)
estimate_varatio() (in module nipy.algorithms.statistics.onesample)
estimateAR() (in module nipy.modalities.fmri.fmristat.model)
Euclidian_distance() (in module nipy.neurospin.eda.dimension_reduction)
Euclidian_mds() (in module nipy.neurospin.eda.dimension_reduction)
eval() (nipy.neurospin.neuro.fmri.mini_designmatrix.MiniHRF method)
(nipy.neurospin.registration.registration.iconic method)
evaluate() (nipy.algorithms.interpolation.ImageInterpolator method)
(nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
Events (class in nipy.modalities.fmri.functions)
execute() (nipy.modalities.fmri.fmristat.model.AR1 method)
(nipy.modalities.fmri.fmristat.model.OLS method)
exists() (nipy.io.datasource.DataSource method)
(nipy.io.datasource.Repository method)
(nipy.utils.path.path method)
expand() (nipy.utils.path.path method)
expanduser() (nipy.utils.path.path method)
expandvars() (nipy.utils.path.path method)
ExperimentalFactor (class in nipy.modalities.fmri.protocol)
ExperimentalFormula (class in nipy.modalities.fmri.protocol)
ExperimentalQuantitative (class in nipy.modalities.fmri.protocol)
ExperimentalRegressor (class in nipy.modalities.fmri.protocol)
ExperimentalStepFunction (class in nipy.modalities.fmri.protocol)
explore() (nipy.neurospin.registration.registration.iconic method)
ext (nipy.utils.path.path attribute)
extract() (nipy.modalities.fmri.fmristat.delay.DelayContrast method)
(nipy.modalities.fmri.fmristat.delay.DelayContrastOutput method)
extract_clusters_from_diam() (in module nipy.neurospin.group.permutation_test)
extract_clusters_from_graph() (in module nipy.neurospin.group.permutation_test)
extract_clusters_from_thresh() (in module nipy.neurospin.group.permutation_test)
extract_tarfile() (in module nipy.utils.get_data)

F

f_generator() (in module nipy.core.image.generators)
fancy_plot() (nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
fancy_plot_() (nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
fastFWHM (class in nipy.algorithms.fwhm)
FDR (class in nipy.neurospin.utils.emp_null)
fdr() (nipy.neurospin.utils.emp_null.ENN method)
fdrcurve() (nipy.neurospin.utils.emp_null.ENN method)
feature() (nipy.core.image.roi.DiscreteROI method)
Field (class in nipy.neurospin.graph.field)
fig_density() (in module nipy.neurospin.spatial_models.structural_bfls)
filename (nipy.io.pyniftiio.PyNiftiIO attribute)
filename() (nipy.io.datasource.Cache method)
(nipy.io.datasource.DataSource method)
(nipy.io.datasource.Repository method)
filepath() (nipy.io.datasource.Cache method)
files() (nipy.utils.path.path method)
Filter (class in nipy.modalities.fmri.filters)
FIR (class in nipy.modalities.fmri.filters)
fit() (nipy.modalities.fmri.pca.PCA method)
(nipy.neurospin.glm.glm.glm method)
floyd() (nipy.neurospin.graph.graph.WeightedGraph method)
flush() (nipy.modalities.fmri.fmristat.npzimage.NPZBuffer method)
FMRI
fmri_generator() (in module nipy.modalities.fmri.fmri)
fmri_image (class in nipy.neurospin.neuro.image_classes)
FmriImageList (class in nipy.modalities.fmri.fmri)
fnmatch() (nipy.utils.path.path method)
fnsum (class in nipy.algorithms.statistics.rft)
Forest (class in nipy.neurospin.graph.graph)
from_3d_grid() (nipy.neurospin.graph.graph.WeightedGraph method)
from_adjacency() (nipy.neurospin.graph.graph.WeightedGraph method)
from_binary_image() (nipy.neurospin.utils.roi.ROI method)
from_labelled_image() (nipy.neurospin.utils.roi.MultipleROI method)
(nipy.neurospin.utils.roi.ROI method)
from_matrix_vector() (in module nipy.core.transforms.affines)
from_origin_and_columns() (in module nipy.core.reference.slices)
from_params() (nipy.core.reference.coordinate_map.Affine static method)
from_position() (nipy.neurospin.utils.roi.ROI method)
from_position_and_image() (nipy.neurospin.utils.roi.ROI method)
from_shape() (nipy.core.reference.array_coords.ArrayCoordMap static method)
from_start_step() (nipy.core.reference.coordinate_map.Affine static method)
fromarray() (in module nipy.core.image.image)
fromimage() (in module nipy.modalities.fmri.fmri)
fromiterator() (nipy.modalities.fmri.protocol.ExperimentalFactor method)
FSL
FStat (class in nipy.algorithms.statistics.rft)
fusion() (in module nipy.neurospin.clustering.hierarchical_clustering)
fwhm2resel() (nipy.algorithms.fwhm.Resels method)
fwhm2sigma() (in module nipy.algorithms.kernel_smooth)

G

Gamma (class in nipy.neurospin.clustering.GGMixture)
GammaCOMB (class in nipy.modalities.fmri.filters)
GammaDENS (class in nipy.modalities.fmri.filters)
GammaHRF (class in nipy.modalities.fmri.filters)
gaussian_random_field (class in nipy.neurospin.group.displacement_field)
generate_blobs() (nipy.neurospin.graph.field.Field method)
generate_output() (in module nipy.modalities.fmri.fmristat.model)
get_children() (nipy.neurospin.graph.graph.Forest method)
get_data() (in module nipy.utils.get_data)
get_descendents() (nipy.neurospin.graph.graph.Forest method)
get_diminfo() (in module nipy.io.nifti_ref)
get_E() (nipy.neurospin.graph.graph.Graph method)
get_edges() (nipy.neurospin.graph.graph.Graph method)
get_feature() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
(nipy.neurospin.utils.roi.ROI method)
get_field() (nipy.neurospin.graph.field.Field method)
get_freq_axis() (in module nipy.io.nifti_ref)
get_height() (nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
get_k() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
get_label() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
get_leaf_label() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
get_local_maxima() (nipy.neurospin.graph.field.Field method)
get_owner() (nipy.utils.path.path method)
get_parents() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
get_phase_axis() (in module nipy.io.nifti_ref)
get_pixdim() (in module nipy.io.nifti_ref)
get_ROI_feature() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
get_seed() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
get_size() (nipy.neurospin.utils.roi.MultipleROI method)
get_slice_axis() (in module nipy.io.nifti_ref)
get_time_axis() (in module nipy.io.nifti_ref)
get_V() (nipy.neurospin.graph.graph.Graph method)
get_vertices() (nipy.neurospin.graph.graph.Graph method)
get_weights() (nipy.neurospin.graph.graph.WeightedGraph method)
getaffine() (in module nipy.io.pyniftiio)
getatime() (nipy.utils.path.path method)
getctime() (nipy.utils.path.path method)
getcwd() (nipy.utils.path.path class method)
getinfo() (nipy.neurospin.clustering.gmm.grid_descriptor method)
getmtime() (nipy.utils.path.path method)
getomega() (nipy.algorithms.statistics.nlsmodel.NLSModel method)
getsize() (nipy.utils.path.path method)
getZ() (nipy.algorithms.statistics.nlsmodel.NLSModel method)
GGGM (class in nipy.neurospin.clustering.GGMixture)
GGM (class in nipy.neurospin.clustering.GGMixture)
Gibbs_estimate() (nipy.neurospin.clustering.gmm.BGMM method)
Gibbs_estimate_and_sample() (nipy.neurospin.clustering.gmm.BGMM method)
glm (class in nipy.neurospin.glm.glm)
glob() (nipy.utils.path.path method)
glover2GammaDENS() (in module nipy.modalities.fmri.hrf)
GMM (class in nipy.neurospin.clustering.gmm)
GPL
Graph (class in nipy.neurospin.graph.graph)
Grid (class in nipy.core.reference.array_coords)
grid_coords() (in module nipy.neurospin.neuro.fmri.realign4d)
grid_descriptor (class in nipy.neurospin.clustering.gmm)

H

header (nipy.core.image.image.Image attribute)
(nipy.io.pyniftiio.PyNiftiIO attribute)
height_threshold() (nipy.neurospin.group.permutation_test.permutation_test method)
hierarchical_asso() (in module nipy.neurospin.spatial_models.structural_bfls)
homogeneity() (nipy.neurospin.spatial_models.structural_bfls.Amers method)
Hotelling (class in nipy.algorithms.statistics.rft)
HROI (class in nipy.neurospin.graph.hroi)

I

ICA
iconic (class in nipy.neurospin.registration.registration)
identity() (nipy.core.reference.coordinate_map.Affine static method)
ijk_from_diminfo() (in module nipy.io.nifti_ref)
Image (class in nipy.core.image.image)
image (class in nipy.neurospin.neuro.image_classes)
ImageInterpolator (class in nipy.algorithms.interpolation)
ImageList (class in nipy.core.image.image_list)
images() (nipy.modalities.fmri.pca.PCA method)
import_nose() (in module nipy.neurospin.utils.nosetester)
index() (nipy.core.reference.coordinate_system.CoordinateSystem method)
infer_latent_dim() (in module nipy.neurospin.eda.dimension_reduction)
init() (nipy.neurospin.clustering.GGMixture.GGGM method)
init_displacement_blocks() (nipy.neurospin.group.displacement_field.displacement_field method)
init_fdr() (nipy.neurospin.clustering.GGMixture.GGGM method)
init_hidden_variables() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
init_motion_detection() (nipy.neurospin.neuro.fmri.realign4d.Realign4d method)
input_coords (nipy.core.reference.coordinate_map.CoordinateMap attribute)
integ() (nipy.algorithms.statistics.rft.ECcone method)
integrate() (nipy.algorithms.fwhm.Resels method)
InterpolatedConfound (class in nipy.modalities.fmri.functions)
IntrinsicVolumes (class in nipy.algorithms.statistics.rft)
inverse (nipy.core.reference.coordinate_map.Affine attribute)
(nipy.core.reference.coordinate_map.CoordinateMap attribute)
inverse_mapping (nipy.core.reference.coordinate_map.Affine attribute)
(nipy.core.reference.coordinate_map.CoordinateMap attribute)
inverse_time_transform() (nipy.neurospin.neuro.image_classes.fmri_image method)
invertR() (in module nipy.modalities.fmri.fmristat.invert)
is_connected() (nipy.neurospin.graph.graph.WeightedGraph method)
isabs() (nipy.utils.path.path method)
iscached() (nipy.io.datasource.Cache method)
iscoerceable() (in module nipy.io.nifti_ref)
isdir() (nipy.utils.path.path method)
isestimable() (nipy.modalities.fmri.fmristat.delay.DelayContrast method)
isfield() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
(nipy.neurospin.spatial_models.parcellation.Parcellation method)
isfile() (nipy.utils.path.path method)
isleaf() (nipy.neurospin.graph.graph.Forest method)
(nipy.neurospin.graph.hroi.ROI_Hierarchy method)
islink() (nipy.utils.path.path method)
ismount() (nipy.utils.path.path method)
isomap() (in module nipy.neurospin.eda.dimension_reduction)
isomap_dev() (in module nipy.neurospin.eda.dimension_reduction)
isroot() (nipy.neurospin.graph.graph.Forest method)
isurl() (in module nipy.io.datasource)
iswritemode() (in module nipy.io.datasource)
iszip() (in module nipy.io.datasource)
iterFWHM (class in nipy.algorithms.fwhm)

J

join_complexes() (in module nipy.algorithms.statistics.utils)
joinpath() (nipy.utils.path.path method)

K

kmeans() (in module nipy.neurospin.clustering.clustering)
knn() (nipy.neurospin.graph.graph.WeightedGraph method)
knn_Isomap (class in nipy.neurospin.eda.dimension_reduction)
knn_LE (class in nipy.neurospin.eda.dimension_reduction)
knn_LPP (class in nipy.neurospin.eda.dimension_reduction)
knownfailure() (in module nipy.testing.decorators)
Kruskal() (nipy.neurospin.graph.graph.WeightedGraph method)
Kruskal_dev() (nipy.neurospin.graph.graph.WeightedGraph method)

L

LE() (in module nipy.neurospin.eda.dimension_reduction)
LE_dev() (in module nipy.neurospin.eda.dimension_reduction)
learn() (nipy.algorithms.statistics.classification.Classifier method)
(nipy.neurospin.utils.emp_null.ENN method)
leaves() (in module nipy.neurospin.graph.BPmatch)
leaves_of_a_subtree() (nipy.neurospin.graph.graph.Forest method)
left_incidence() (nipy.neurospin.graph.graph.WeightedGraph method)
LGPL
linear_model (class in nipy.neurospin.neuro.linear_model)
LinearFilter (class in nipy.algorithms.kernel_smooth)
LinearInterpolant (class in nipy.modalities.fmri.utils)
linearize() (in module nipy.core.reference.coordinate_map)
lines() (nipy.utils.path.path method)
link() (nipy.utils.path.path method)
list_of_neighbors() (nipy.neurospin.graph.graph.WeightedGraph method)
list_of_subtrees() (nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
listdir() (nipy.utils.path.path method)
load() (in module nipy.io.files)
(in module nipy.neurospin.glm.glm)
load_npz() (in module nipy.modalities.fmri.fmristat.npzimage)
local_correction_for_embedding() (in module nipy.neurospin.eda.dimension_reduction)
local_maxima() (nipy.neurospin.graph.field.Field method)
local_sym_normalize() (in module nipy.neurospin.eda.dimension_reduction)
log_gammainv_pdf() (in module nipy.neurospin.group.spatial_relaxation_onesample)
log_gaussian_pdf() (in module nipy.neurospin.group.spatial_relaxation_onesample)
LPP() (in module nipy.neurospin.eda.dimension_reduction)
lstat() (nipy.utils.path.path method)

M

main() (in module nipy.testing.nitest)
(in module nipy.utils.perlpie)
main_cc() (nipy.neurospin.graph.graph.Graph method)
main_effect() (nipy.modalities.fmri.protocol.ExperimentalFactor method)
make_feature() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
(nipy.neurospin.spatial_models.parcellation.Parcellation method)
make_feature_from_info() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
make_forest() (nipy.neurospin.graph.hroi.NROI method)
(nipy.neurospin.graph.hroi.ROI_Hierarchy method)
make_graph() (nipy.neurospin.graph.hroi.NROI method)
(nipy.neurospin.graph.hroi.ROI_Hierarchy method)
make_grid() (nipy.neurospin.clustering.gmm.grid_descriptor method)
make_image() (nipy.neurospin.utils.roi.MultipleROI method)
(nipy.neurospin.utils.roi.ROI method)
make_label_dec() (in module nipy.testing.decorators)
makedirs() (nipy.utils.path.path method)
mapping (nipy.core.reference.coordinate_map.CoordinateMap attribute)
mask() (nipy.core.image.roi.CoordinateMapROI method)
(nipy.core.image.roi.ROIall method)
mask_intersection() (in module nipy.neurospin.neuro.statistical_test)
match_trivial() (in module nipy.neurospin.graph.BPmatch)
Matlab
matrix_generator() (in module nipy.core.image.generators)
max_dist() (in module nipy.neurospin.group.permutation_test)
maxdepth() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
Maximum_Link_Distance() (in module nipy.neurospin.clustering.hierarchical_clustering)
Maximum_Link_Distance_segment() (in module nipy.neurospin.clustering.hierarchical_clustering)
Maximum_Link_Euclidian() (in module nipy.neurospin.clustering.hierarchical_clustering)
MDS (class in nipy.neurospin.eda.dimension_reduction)
mds() (in module nipy.neurospin.eda.dimension_reduction)
merge() (in module nipy.neurospin.spatial_models.structural_bfls)
merge_ascending() (nipy.neurospin.graph.hroi.NROI method)
(nipy.neurospin.graph.hroi.ROI_Hierarchy method)
merge_descending() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
merge_images() (in module nipy.core.image.image)
merge_simple_branches() (nipy.neurospin.graph.graph.Forest method)
MiniHRF (class in nipy.neurospin.neuro.fmri.mini_designmatrix)
mkdir() (nipy.utils.path.path method)
mlab_tempfile() (in module nipy.utils.mlabtemp)
model_generator() (in module nipy.modalities.fmri.fmristat.model)
ModelOutputImage (class in nipy.modalities.fmri.fmristat.model)
move() (nipy.utils.path.path method)
msid() (nipy.neurospin.neuro.fmri.realign4d.Realign4d method)
mst() (nipy.neurospin.graph.graph.WeightedGraph method)
Mstep() (nipy.neurospin.clustering.GGMixture.GGGM method)
(nipy.neurospin.clustering.GGMixture.GGM method)
mtime (nipy.utils.path.path attribute)
mu_ball() (in module nipy.algorithms.statistics.rft)
mu_sphere() (in module nipy.algorithms.statistics.rft)
MultilinearForm (class in nipy.algorithms.statistics.rft)
MultipleROI (class in nipy.neurospin.utils.roi)
multivariate_stat (class in nipy.neurospin.group.spatial_relaxation_onesample)

N

name (nipy.utils.path.path attribute)
namebase (nipy.utils.path.path attribute)
names() (nipy.modalities.fmri.protocol.ExperimentalFactor method)
(nipy.modalities.fmri.protocol.ExperimentalFormula method)
(nipy.modalities.fmri.protocol.ExperimentalRegressor method)
ndim (nipy.core.image.image.Image attribute)
(nipy.core.reference.coordinate_map.CoordinateMap attribute)
(nipy.core.reference.coordinate_system.CoordinateSystem attribute)
(nipy.io.pyniftiio.PyNiftiIO attribute)
needs_review() (in module nipy.testing.decorators)
next() (nipy.algorithms.statistics.nlsmodel.NLSModel method)
(nipy.core.image.image_list.ImageList method)
(nipy.core.image.roi.DiscreteROI method)
nipy.algorithms.fwhm (module)
nipy.algorithms.interpolation (module)
nipy.algorithms.kernel_smooth (module)
nipy.algorithms.resample (module)
nipy.algorithms.statistics.classification (module)
nipy.algorithms.statistics.nlsmodel (module)
nipy.algorithms.statistics.onesample (module)
nipy.algorithms.statistics.regression (module)
nipy.algorithms.statistics.rft (module)
nipy.algorithms.statistics.utils (module)
nipy.core.image.generators (module)
nipy.core.image.image (module)
nipy.core.image.image_list (module)
nipy.core.image.roi (module)
nipy.core.reference.array_coords (module)
nipy.core.reference.coordinate_map (module)
nipy.core.reference.coordinate_system (module)
nipy.core.reference.slices (module)
nipy.core.transforms.affines (module)
nipy.io.datasource (module)
nipy.io.files (module)
nipy.io.nifti_ref (module)
nipy.io.pyniftiio (module)
nipy.modalities.fmri.filters (module)
nipy.modalities.fmri.fmri (module)
nipy.modalities.fmri.fmristat.delay (module)
nipy.modalities.fmri.fmristat.invert (module)
nipy.modalities.fmri.fmristat.model (module)
nipy.modalities.fmri.fmristat.npzimage (module)
nipy.modalities.fmri.fmristat.utils (module)
nipy.modalities.fmri.functions (module)
nipy.modalities.fmri.hrf (module)
nipy.modalities.fmri.pca (module)
nipy.modalities.fmri.protocol (module)
nipy.modalities.fmri.utils (module)
nipy.neurospin.clustering.bootstrap_hc (module)
nipy.neurospin.clustering.clustering (module)
nipy.neurospin.clustering.GGMixture (module)
nipy.neurospin.clustering.gmm (module)
nipy.neurospin.clustering.hierarchical_clustering (module)
nipy.neurospin.eda.dimension_reduction (module)
nipy.neurospin.glm.glm (module)
nipy.neurospin.graph.BPmatch (module)
nipy.neurospin.graph.field (module)
nipy.neurospin.graph.graph (module)
nipy.neurospin.graph.hroi (module)
nipy.neurospin.group.displacement_field (module)
nipy.neurospin.group.permutation_test (module)
nipy.neurospin.group.spatial_relaxation_onesample (module)
nipy.neurospin.neuro.affine_registration (module)
nipy.neurospin.neuro.fmri.mini_designmatrix (module)
nipy.neurospin.neuro.fmri.realign4d (module)
nipy.neurospin.neuro.image_classes (module)
nipy.neurospin.neuro.linear_model (module)
nipy.neurospin.neuro.slices_ploter (module)
nipy.neurospin.neuro.statistical_test (module)
nipy.neurospin.registration.registration (module)
nipy.neurospin.registration.transform_affine (module)
nipy.neurospin.spatial_models.parcellation (module)
nipy.neurospin.spatial_models.structural_bfls (module)
nipy.neurospin.utils.emp_null (module)
nipy.neurospin.utils.mask (module)
nipy.neurospin.utils.nosetester (module)
nipy.neurospin.utils.roi (module)
nipy.neurospin.utils.simul_2d_multisubject_fmri_dataset (module)
nipy.neurospin.utils.smoothing (module)
nipy.neurospin.utils.threshold (module)
nipy.neurospin.utils.zscore (module)
nipy.testing.decorators (module)
nipy.testing.nitest (module)
nipy.utils.get_data (module)
nipy.utils.mlabtemp (module)
nipy.utils.path (module)
nipy.utils.perlpie (module)
NLDR (class in nipy.neurospin.eda.dimension_reduction)
NLSModel (class in nipy.algorithms.statistics.nlsmodel)
normalize() (nipy.algorithms.fwhm.iterFWHM method)
(nipy.neurospin.graph.graph.WeightedGraph method)
normcase() (nipy.utils.path.path method)
normpath() (nipy.utils.path.path method)
NoseTester (class in nipy.neurospin.utils.nosetester)
NPZBuffer (class in nipy.modalities.fmri.fmristat.npzimage)
NROI (class in nipy.neurospin.graph.hroi)

O

OLS (class in nipy.modalities.fmri.fmristat.model)
ols() (in module nipy.neurospin.glm.glm)
onesample_stat() (in module nipy.neurospin.group.permutation_test)
onesample_test() (in module nipy.neurospin.neuro.statistical_test)
OneSidedF (class in nipy.algorithms.statistics.rft)
open() (nipy.io.datasource.DataSource method)
(nipy.io.datasource.Repository method)
(nipy.utils.path.path method)
opening() (nipy.neurospin.graph.field.Field method)
optimize() (nipy.neurospin.registration.registration.iconic method)
optimize_with_BIC() (nipy.neurospin.clustering.gmm.GMM method)
orientation (nipy.io.pyniftiio.PyNiftiIO attribute)
Orthonormalize() (in module nipy.neurospin.eda.dimension_reduction)
output() (nipy.algorithms.fwhm.iterFWHM method)
output_AR1() (in module nipy.algorithms.statistics.regression)
(in module nipy.modalities.fmri.fmristat.model)
output_coords (nipy.core.reference.coordinate_map.CoordinateMap attribute)
output_F() (in module nipy.algorithms.statistics.regression)
(in module nipy.modalities.fmri.fmristat.model)
output_resid() (in module nipy.algorithms.statistics.regression)
(in module nipy.modalities.fmri.fmristat.model)
output_T() (in module nipy.algorithms.statistics.regression)
(in module nipy.modalities.fmri.fmristat.model)
owner (nipy.utils.path.path attribute)

P

parameters() (nipy.neurospin.clustering.GGMixture.Gamma method)
(nipy.neurospin.clustering.GGMixture.GGGM method)
(nipy.neurospin.clustering.GGMixture.GGM method)
params_to_mat44() (in module nipy.neurospin.neuro.fmri.realign4d)
Parcellation (class in nipy.neurospin.spatial_models.parcellation)
parcels() (in module nipy.core.image.generators)
parent (nipy.utils.path.path attribute)
partial_floyd_graph() (in module nipy.neurospin.eda.dimension_reduction)
partition() (nipy.neurospin.clustering.gmm.GMM method)
(nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
path (class in nipy.utils.path)
pathconf() (nipy.utils.path.path method)
PCA
(class in nipy.modalities.fmri.pca)
peak_XYZ() (in module nipy.neurospin.group.permutation_test)
PeriodicStimulus (class in nipy.modalities.fmri.functions)
perl_dash_pie() (in module nipy.utils.perlpie)
permutation_test (class in nipy.neurospin.group.permutation_test)
permutation_test_onesample (class in nipy.neurospin.group.permutation_test)
permutation_test_onesample_graph (class in nipy.neurospin.group.permutation_test)
permutation_test_twosample (class in nipy.neurospin.group.permutation_test)
PET
pixdim (nipy.io.pyniftiio.PyNiftiIO attribute)
plot() (nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
(nipy.neurospin.utils.emp_null.ENN method)
plot2() (nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
plot_feature() (nipy.neurospin.utils.roi.MultipleROI method)
(nipy.neurospin.utils.roi.ROI method)
plot_height() (nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
pool() (nipy.core.image.roi.CoordinateMapROI method)
(nipy.core.image.roi.DiscreteROI method)
(nipy.core.image.roi.ROIall method)
population() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
posterior() (nipy.neurospin.clustering.GGMixture.GGGM method)
(nipy.neurospin.clustering.GGMixture.GGM method)
preconditioner() (in module nipy.neurospin.registration.transform_affine)
predict() (nipy.algorithms.statistics.nlsmodel.NLSModel method)
prepare_arrays() (in module nipy.neurospin.neuro.statistical_test)
PRFX() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
print_field() (nipy.neurospin.graph.field.Field method)
product() (in module nipy.core.reference.coordinate_map)
(in module nipy.core.reference.coordinate_system)
project() (nipy.modalities.fmri.pca.PCA method)
propagate_AND_to_root() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
propagate_upward() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
psi_solve() (in module nipy.neurospin.clustering.GGMixture)
pth_from_pvals() (nipy.neurospin.utils.emp_null.FDR method)
pvalue() (nipy.algorithms.statistics.rft.ECcone method)
(nipy.neurospin.glm.glm.contrast method)
(nipy.neurospin.group.permutation_test.permutation_test method)
PyNiftiIO (class in nipy.io.pyniftiio)

Q

Q() (in module nipy.algorithms.statistics.rft)
quasi() (nipy.algorithms.statistics.rft.ECcone method)

R

RD_cliques() (in module nipy.neurospin.spatial_models.structural_bfls)
read_chunk() (in module nipy.utils.get_data)
read_md5() (nipy.utils.path.path method)
readlink() (nipy.utils.path.path method)
readlinkabs() (nipy.utils.path.path method)
Realign4d (class in nipy.neurospin.neuro.fmri.realign4d)
realign4d() (in module nipy.neurospin.neuro.fmri.realign4d)
realpath() (nipy.utils.path.path method)
reduce_to_leaves() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
RegressionOutput (class in nipy.algorithms.statistics.regression)
RegressionOutputList (class in nipy.algorithms.statistics.regression)
relpath() (nipy.utils.path.path method)
relpathto() (nipy.utils.path.path method)
remove() (nipy.utils.path.path method)
remove_edges() (nipy.neurospin.graph.graph.WeightedGraph method)
remove_feature() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
(nipy.neurospin.spatial_models.parcellation.Parcellation method)
remove_trivial_edges() (nipy.neurospin.graph.graph.WeightedGraph method)
removedirs() (nipy.utils.path.path method)
rename() (nipy.utils.path.path method)
renames() (nipy.utils.path.path method)
reorder() (nipy.neurospin.graph.graph.WeightedGraph method)
reorder_from_leaves_to_roots() (nipy.neurospin.graph.graph.Forest method)
reorder_input() (in module nipy.core.reference.coordinate_map)
reorder_output() (in module nipy.core.reference.coordinate_map)
replicate() (in module nipy.core.reference.coordinate_map)
Repository (class in nipy.io.datasource)
representative_feature() (nipy.neurospin.utils.roi.ROI method)
resample() (in module nipy.algorithms.resample)
(nipy.neurospin.neuro.fmri.realign4d.Realign4d method)
(nipy.neurospin.registration.registration.iconic method)
resample_all_inmask() (nipy.neurospin.neuro.fmri.realign4d.Realign4d method)
resample_inmask() (nipy.neurospin.neuro.fmri.realign4d.Realign4d method)
resampleNiftiImage() (in module nipy.neurospin.neuro.slices_ploter)
resel2fwhm() (nipy.algorithms.fwhm.Resels method)
ReselImage (class in nipy.algorithms.fwhm)
Resels (class in nipy.algorithms.fwhm)
results_generator() (in module nipy.modalities.fmri.fmristat.model)
retrieve() (nipy.io.datasource.Cache method)
right_incidence() (nipy.neurospin.graph.graph.WeightedGraph method)
rmdir() (nipy.utils.path.path method)
rmtree() (nipy.utils.path.path method)
ROC() (nipy.neurospin.clustering.GGMixture.GGGM method)
ROI (class in nipy.core.image.roi)
(class in nipy.neurospin.utils.roi)
roi_ellipse_fn() (in module nipy.core.image.roi)
roi_from_array_sampling_coordmap() (in module nipy.core.image.roi)
ROI_Hierarchy (class in nipy.neurospin.graph.hroi)
roi_sphere_fn() (in module nipy.core.image.roi)
ROIall (class in nipy.core.image.roi)
ROISequence (class in nipy.core.image.roi)
Roy (class in nipy.algorithms.statistics.rft)
run_module_suite() (in module nipy.neurospin.utils.nosetester)

S

SAEM() (nipy.neurospin.clustering.GGMixture.GGGM method)
safe_dtype() (in module nipy.core.reference.coordinate_system)
safe_variance() (nipy.neurospin.neuro.fmri.realign4d.Realign4d method)
samefile() (nipy.utils.path.path method)
sample() (nipy.neurospin.clustering.gmm.GMM method)
(nipy.neurospin.group.displacement_field.displacement_field method)
(nipy.neurospin.group.displacement_field.gaussian_random_field method)
sample_all_blocks() (nipy.neurospin.group.displacement_field.displacement_field method)
sample_on_data() (nipy.neurospin.clustering.gmm.BGMM method)
save() (in module nipy.io.files)
(nipy.io.pyniftiio.PyNiftiIO method)
(nipy.modalities.fmri.fmristat.model.ModelOutputImage method)
(nipy.neurospin.glm.glm.glm method)
(nipy.neurospin.neuro.image_classes.image method)
save_npz() (in module nipy.modalities.fmri.fmristat.npzimage)
scale_space() (in module nipy.algorithms.statistics.rft)
segment_graph_rd() (in module nipy.neurospin.spatial_models.structural_bfls)
set() (nipy.neurospin.registration.registration.iconic method)
set_array() (nipy.neurospin.neuro.image_classes.image method)
set_edges() (nipy.neurospin.graph.graph.BipartiteGraph method)
(nipy.neurospin.graph.graph.Graph method)
set_empirical_priors() (nipy.neurospin.clustering.gmm.BGMM method)
set_euclidian() (nipy.neurospin.graph.graph.WeightedGraph method)
set_feature() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
(nipy.neurospin.utils.roi.ROI method)
set_feature_from_image() (nipy.neurospin.utils.roi.MultipleROI method)
(nipy.neurospin.utils.roi.ROI method)
set_feature_from_masked_data() (nipy.neurospin.utils.roi.ROI method)
set_field() (nipy.neurospin.graph.field.Field method)
set_gaussian() (nipy.neurospin.graph.graph.WeightedGraph method)
set_group_labels() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
set_height() (nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
set_info() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
set_k() (nipy.neurospin.clustering.gmm.GMM method)
set_label() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
set_labels() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
set_next() (nipy.algorithms.fwhm.iterFWHM method)
(nipy.modalities.fmri.fmristat.delay.DelayContrastOutput method)
set_parents() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
set_priors() (nipy.neurospin.clustering.gmm.BGMM method)
set_ROI_feature() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
set_roi_feature() (nipy.neurospin.utils.roi.MultipleROI method)
set_seed() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
set_subjects() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
set_train_data() (nipy.neurospin.eda.dimension_reduction.NLDR method)
set_weights() (nipy.neurospin.graph.graph.WeightedGraph method)
shape (nipy.core.image.image.Image attribute)
(nipy.io.pyniftiio.PyNiftiIO attribute)
shape_generator() (in module nipy.core.image.generators)
show() (nipy.neurospin.clustering.GGMixture.GGGM method)
(nipy.neurospin.clustering.GGMixture.GGM method)
(nipy.neurospin.clustering.gmm.GMM method)
(nipy.neurospin.graph.graph.Graph method)
(nipy.neurospin.graph.graph.WeightedGraph method)
show_components() (nipy.neurospin.clustering.gmm.GMM method)
showOneView() (in module nipy.neurospin.neuro.slices_ploter)
sigma2fwhm() (in module nipy.algorithms.kernel_smooth)
simulated_pvalue() (in module nipy.neurospin.neuro.statistical_test)
singles() (in module nipy.neurospin.graph.BPmatch)
size (nipy.utils.path.path attribute)
skeleton() (nipy.neurospin.graph.graph.WeightedGraph method)
skipif() (in module nipy.neurospin.utils.nosetester)
slice_generator() (in module nipy.core.image.generators)
slice_parcels() (in module nipy.core.image.generators)
smooth() (nipy.algorithms.kernel_smooth.LinearFilter method)
sorted_values() (in module nipy.neurospin.group.permutation_test)
sparse_local_correction_for_embedding() (in module nipy.neurospin.eda.dimension_reduction)
SpectralHRF (class in nipy.modalities.fmri.hrf)
spherical_search() (in module nipy.algorithms.statistics.rft)
SplineConfound (class in nipy.modalities.fmri.functions)
split() (nipy.neurospin.clustering.hierarchical_clustering.WeightedForest method)
splitall() (nipy.utils.path.path method)
splitdrive() (nipy.utils.path.path method)
splitext() (nipy.utils.path.path method)
splitpath() (nipy.utils.path.path method)
splitzipext() (in module nipy.io.datasource)
SPM
SPM approach
SPM software
square_gaussian_filter() (in module nipy.neurospin.group.displacement_field)
square_gaussian_filter1d() (in module nipy.neurospin.group.displacement_field)
SSE() (nipy.algorithms.statistics.nlsmodel.NLSModel method)
standard_order() (in module nipy.io.nifti_ref)
stat() (nipy.neurospin.glm.glm.contrast method)
(nipy.utils.path.path method)
statvfs() (nipy.utils.path.path method)
Stimulus (class in nipy.modalities.fmri.functions)
stripext() (nipy.utils.path.path method)
subforest() (nipy.neurospin.graph.graph.Forest method)
subgraph() (nipy.neurospin.graph.graph.WeightedGraph method)
subsample_matrix_example() (in module nipy.neurospin.neuro.fmri.mini_designmatrix)
subtree() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
summary() (nipy.neurospin.glm.glm.contrast method)
symlink() (nipy.utils.path.path method)
symmeterize() (nipy.neurospin.graph.graph.WeightedGraph method)

T

tempfile() (nipy.io.datasource.Cache method)
(nipy.io.datasource.DataSource method)
test() (nipy.neurospin.clustering.gmm.GMM method)
(nipy.neurospin.eda.dimension_reduction.MDS method)
(nipy.neurospin.eda.dimension_reduction.NLDR method)
(nipy.neurospin.eda.dimension_reduction.eps_Isomap method)
(nipy.neurospin.eda.dimension_reduction.knn_Isomap method)
(nipy.neurospin.eda.dimension_reduction.knn_LPP method)
(nipy.neurospin.utils.nosetester.NoseTester method)
test1() (in module nipy.neurospin.utils.roi)
test2() (in module nipy.neurospin.utils.roi)
test_EC2() (in module nipy.algorithms.statistics.utils)
test_EC3() (in module nipy.algorithms.statistics.utils)
test_Gamma_parameters() (in module nipy.neurospin.clustering.GGMixture)
test_GGGM() (in module nipy.neurospin.clustering.GGMixture)
test_GGM() (in module nipy.neurospin.clustering.GGMixture)
test_mroi1() (in module nipy.neurospin.utils.roi)
test_mroi2() (in module nipy.neurospin.utils.roi)
test_mroi3() (in module nipy.neurospin.utils.roi)
test_nroi() (in module nipy.neurospin.graph.hroi)
text() (nipy.utils.path.path method)
threshold() (nipy.neurospin.utils.emp_null.ENN method)
(nipy.neurospin.utils.emp_null.FDR method)
threshold_bifurcations() (nipy.neurospin.graph.field.Field method)
threshold_from_student() (nipy.neurospin.utils.emp_null.FDR method)
threshold_scalar_image() (in module nipy.neurospin.utils.threshold)
threshold_z_image() (in module nipy.neurospin.utils.threshold)
time_transform() (nipy.neurospin.neuro.image_classes.fmri_image method)
to_matrix_vector() (in module nipy.core.transforms.affines)
tocoordmap() (nipy.core.image.roi.ContinuousROI method)
todiscrete() (nipy.core.image.roi.ContinuousROI method)
touch() (nipy.utils.path.path method)
TOutput (class in nipy.algorithms.statistics.regression)
train() (nipy.neurospin.eda.dimension_reduction.eps_Isomap method)
(nipy.neurospin.eda.dimension_reduction.MDS method)
(nipy.neurospin.eda.dimension_reduction.NLDR method)
(nipy.neurospin.eda.dimension_reduction.knn_Isomap method)
(nipy.neurospin.eda.dimension_reduction.knn_LE method)
(nipy.neurospin.eda.dimension_reduction.knn_LPP method)
transform() (in module nipy.neurospin.registration.transform_affine)
transposed_values (nipy.core.reference.array_coords.ArrayCoordMap attribute)
tree_depth() (nipy.neurospin.graph.hroi.ROI_Hierarchy method)
TreeWalkWarning (class in nipy.utils.path)
TStat (class in nipy.algorithms.statistics.rft)
twosample_stat() (in module nipy.neurospin.group.permutation_test)

U

uncorrected_threshold() (nipy.neurospin.utils.emp_null.ENN method)
unlink() (nipy.utils.path.path method)
unzip() (in module nipy.io.datasource)
update_block() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
update_displacements() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
update_effects() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
update_labels() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
update_mean_effect() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
update_parameters_mcmc() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
update_parameters_saem() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
update_summary_statistics() (nipy.neurospin.group.spatial_relaxation_onesample.multivariate_stat method)
utime() (nipy.utils.path.path method)

V

values (nipy.core.reference.array_coords.ArrayCoordMap attribute)
var_feature_intra() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
variance() (nipy.neurospin.neuro.fmri.realign4d.Realign4d method)
variance_inter() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
variance_intra() (nipy.neurospin.spatial_models.parcellation.Parcellation method)
VB_estimate() (nipy.neurospin.clustering.gmm.BGMM method)
VB_estimate_and_sample() (nipy.neurospin.clustering.gmm.BGMM method)
VB_sample() (nipy.neurospin.clustering.gmm.BGMM method)
vector12_to_param() (in module nipy.neurospin.registration.transform_affine)
volume2ball() (in module nipy.algorithms.statistics.rft)
Voronoi_diagram() (nipy.neurospin.graph.graph.WeightedGraph method)
Voronoi_Labelling() (nipy.neurospin.graph.graph.WeightedGraph method)
VoxBo
voxel
voxel_transform() (nipy.neurospin.registration.registration.iconic method)

W

walk() (nipy.utils.path.path method)
walkdirs() (nipy.utils.path.path method)
walkfiles() (nipy.utils.path.path method)
Ward() (in module nipy.neurospin.clustering.hierarchical_clustering)
ward_msb() (in module nipy.neurospin.clustering.bootstrap_hc)
Ward_quick() (in module nipy.neurospin.clustering.hierarchical_clustering)
Ward_quick_segment() (in module nipy.neurospin.clustering.hierarchical_clustering)
Ward_segment() (in module nipy.neurospin.clustering.hierarchical_clustering)
Ward_simple() (in module nipy.neurospin.clustering.hierarchical_clustering)
water activation PET
WaveFunction (class in nipy.modalities.fmri.utils)
WeightedDegree() (nipy.neurospin.graph.graph.WeightedGraph method)
WeightedForest (class in nipy.neurospin.clustering.hierarchical_clustering)
WeightedGraph (class in nipy.neurospin.graph.graph)
WeightedROI (class in nipy.neurospin.utils.roi)
WholeBrainNormalize (class in nipy.modalities.fmri.fmristat.utils)
window() (in module nipy.modalities.fmri.functions)
write_bytes() (nipy.utils.path.path method)
write_data() (in module nipy.core.image.generators)
write_lines() (nipy.utils.path.path method)
write_text() (nipy.utils.path.path method)

X

xslice() (in module nipy.core.reference.slices)

Y

yslice() (in module nipy.core.reference.slices)

Z

z_threshold() (in module nipy.neurospin.neuro.statistical_test)
z_to_slice() (nipy.neurospin.neuro.image_classes.fmri_image method)
zscore() (in module nipy.neurospin.utils.zscore)
(nipy.neurospin.glm.glm.contrast method)
(nipy.neurospin.group.permutation_test.permutation_test method)
zslice() (in module nipy.core.reference.slices)