NIPY documentation

Release

0.5.0

Date

December 21, 2022

Contents:

• User Guide
  • Introduction
  • Download and Install
  • Geography of the Scipy world
  • Tutorials
  • Glossary
• NeuroSpin tools
  • Mask-extraction utilities
  • Empirical null
  • Plotting of activation maps
  • Generating simulated activation maps
  • Volumetric data structures
• Developer Guide
  • Development quickstart
  • Developer installs for different distributions
  • Development Guidelines
  • Development Planning
  • Code discussions
  • Developer Tools
• FAQ
  • Why …
  • Licensing
  • Documentation FAQ
• API
  • algorithms.clustering.bgmm
  • algorithms.clustering.ggmixture
  • algorithms.clustering.gmm
  • algorithms.clustering.hierarchical_clustering
  • algorithms.clustering.imm
  • algorithms.clustering.utils
  • algorithms.clustering.von_mises_fisher_mixture
  • algorithms.diagnostics.commands
  • algorithms.diagnostics.screens
  • algorithms.diagnostics.timediff
  • algorithms.diagnostics.tsdiffplot
  • algorithms.fwhm
  • algorithms.graph.bipartite_graph
  • algorithms.graph.field
  • algorithms.graph.forest
  • algorithms.graph.graph
  • algorithms.group.parcel_analysis
  • algorithms.interpolation
  • algorithms.kernel_smooth
  • algorithms.optimize
  • algorithms.registration.affine
  • algorithms.registration.chain_transform
  • algorithms.registration.groupwise_registration
  • algorithms.registration.histogram_registration
  • algorithms.registration.optimizer
  • algorithms.registration.polyaffine
  • algorithms.registration.resample
  • algorithms.registration.scripting
  • algorithms.registration.similarity_measures
  • algorithms.registration.transform
  • algorithms.registration.type_check
  • algorithms.resample
  • algorithms.segmentation.brain_segmentation
  • algorithms.segmentation.segmentation
  • algorithms.slicetiming.timefuncs
  • algorithms.statistics.bayesian_mixed_effects
  • algorithms.statistics.bench.bench_intvol
  • algorithms.statistics.empirical_pvalue
  • algorithms.statistics.formula.formulae
  • algorithms.statistics.mixed_effects_stat
  • algorithms.statistics.models.family.family
  • algorithms.statistics.models.family.links
  • algorithms.statistics.models.family.varfuncs
  • algorithms.statistics.models.glm
  • algorithms.statistics.models.model
  • algorithms.statistics.models.nlsmodel
  • algorithms.statistics.models.regression
  • algorithms.statistics.models.setupscons
  • algorithms.statistics.models.utils
  • algorithms.statistics.onesample
  • algorithms.statistics.rft
  • algorithms.statistics.utils
  • algorithms.utils.fast_distance
  • algorithms.utils.matrices
  • algorithms.utils.pca
  • cli.diagnose
  • cli.img3dto4d
  • cli.img4dto3d
  • cli.realign4d
  • cli.tsdiffana
  • core.image.image
  • core.image.image_list
  • core.image.image_spaces
  • core.reference.array_coords
  • core.reference.coordinate_map
  • core.reference.coordinate_system
  • core.reference.slices
  • core.reference.spaces
  • core.utils.generators
  • interfaces.matlab
  • interfaces.spm
  • io.files
  • io.nibcompat
  • io.nifti_ref
  • labs.bindings.benchmarks.bench_numpy
  • labs.datasets.converters
  • labs.datasets.transforms.affine_transform
  • labs.datasets.transforms.affine_utils
  • labs.datasets.transforms.transform
  • labs.datasets.volumes.volume_data
  • labs.datasets.volumes.volume_field
  • labs.datasets.volumes.volume_grid
  • labs.datasets.volumes.volume_img
  • labs.glm.benchmarks.bench_glm
  • labs.glm.glm
  • labs.group.permutation_test
  • labs.mask
  • labs.spatial_models.bayesian_structural_analysis
  • labs.spatial_models.bsa_io
  • labs.spatial_models.discrete_domain
  • labs.spatial_models.hierarchical_parcellation
  • labs.spatial_models.hroi
  • labs.spatial_models.mroi
  • labs.spatial_models.parcel_io
  • labs.spatial_models.parcellation
  • labs.spatial_models.structural_bfls
  • labs.statistical_mapping
  • labs.utils.reproducibility_measures
  • labs.utils.simul_multisubject_fmri_dataset
  • labs.utils.zscore
  • labs.viz_tools.activation_maps
  • labs.viz_tools.anat_cache
  • labs.viz_tools.cm
  • labs.viz_tools.coord_tools
  • labs.viz_tools.maps_3d
  • labs.viz_tools.slicers
  • labs.viz_tools.test.test_activation_maps
  • labs.viz_tools.test.test_cm
  • labs.viz_tools.test.test_coord_tools
  • labs.viz_tools.test.test_edge_detect
  • labs.viz_tools.test.test_slicers
  • modalities.fmri.design
  • modalities.fmri.design_matrix
  • modalities.fmri.experimental_paradigm
  • modalities.fmri.fmri
  • modalities.fmri.fmristat.hrf
  • modalities.fmri.fmristat.invert
  • modalities.fmri.fmristat.model
  • modalities.fmri.fmristat.outputters
  • modalities.fmri.glm
  • modalities.fmri.hemodynamic_models
  • modalities.fmri.hrf
  • modalities.fmri.realfuncs
  • modalities.fmri.spm.correlation
  • modalities.fmri.spm.model
  • modalities.fmri.spm.reml
  • modalities.fmri.spm.trace
  • modalities.fmri.utils
  • pkg_info
  • testing
  • testing.decorators
  • testing.doctester
  • testing.nosetester
  • utils
  • utils.arrays
  • utils.compat3
  • utils.perlpie
  • utils.skip_test
  • utils.utilities
• Publications
  • Peer-reviewed Publications
  • Posters
• NIPY License Information
  • Software License
  • Documentation License

• Index

• Module Index

• Search Page