Index

A

aggregate() (junifer.markers.EdgeCentricFCParcels method) (junifer.markers.EdgeCentricFCSpheres method) (junifer.markers.FunctionalConnectivityParcels method) (junifer.markers.FunctionalConnectivitySpheres method) (junifer.markers.TemporalSNRParcels method) (junifer.markers.TemporalSNRSpheres method)

ALFFParcels (class in junifer.markers) ALFFSpheres (class in junifer.markers)

B

BaseDataGrabber (class in junifer.datagrabber) BaseFeatureStorage (class in junifer.storage) BaseMarker (class in junifer.markers)

BasePreprocessor (class in junifer.preprocess) BrainPrint (class in junifer.markers) build() (in module junifer.pipeline.registry)

C

cleanup() (junifer.datagrabber.DataladDataGrabber method) collect() (in module junifer.api) (junifer.api.queue_context.GnuParallelLocalAdapter method) (junifer.api.queue_context.HTCondorAdapter method) (junifer.api.queue_context.QueueContextAdapter method) (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.SQLiteFeatureStorage method) compute() (junifer.markers.ALFFParcels method) (junifer.markers.ALFFSpheres method) (junifer.markers.BaseMarker method) (junifer.markers.BrainPrint method) (junifer.markers.CrossParcellationFC method) (junifer.markers.ParcelAggregation method) (junifer.markers.ReHoParcels method) (junifer.markers.ReHoSpheres method) (junifer.markers.RSSETSMarker method) (junifer.markers.SphereAggregation method)

compute_brain_mask() (in module junifer.data.masks) compute_complexity() (junifer.markers.complexity.HurstExponent method) (junifer.markers.complexity.MultiscaleEntropyAUC method) (junifer.markers.complexity.PermEntropy method) (junifer.markers.complexity.RangeEntropy method) (junifer.markers.complexity.RangeEntropyAUC method) (junifer.markers.complexity.SampleEntropy method) (junifer.markers.complexity.WeightedPermEntropy method) configure_logging() (in module junifer.utils) count() (in module junifer.stats) CrossParcellationFC (class in junifer.markers)

D

dag() (junifer.api.queue_context.HTCondorAdapter method) datadir (junifer.datagrabber.BaseDataGrabber property) (junifer.datagrabber.DataladDataGrabber property) DataladAOMICID1000 (class in junifer.datagrabber) DataladAOMICPIOP1 (class in junifer.datagrabber)

DataladAOMICPIOP2 (class in junifer.datagrabber) DataladDataGrabber (class in junifer.datagrabber) DataladHCP1200 (class in junifer.datagrabber) deep_update() (in module junifer.utils) DefaultDataReader (class in junifer.datareader) DMCC13Benchmark (class in junifer.datagrabber)

E

EdgeCentricFCParcels (class in junifer.markers) EdgeCentricFCSpheres (class in junifer.markers)

element_to_index() (junifer.storage.PandasBaseFeatureStorage static method) elements() (junifer.api.queue_context.GnuParallelLocalAdapter method)

F

filter() (junifer.datagrabber.BaseDataGrabber method) fit() (junifer.markers.MarkerCollection method) fit_transform() (junifer.pipeline.PipelineStepMixin method)

fMRIPrepConfoundRemover (class in junifer.preprocess) FunctionalConnectivityParcels (class in junifer.markers) FunctionalConnectivitySpheres (class in junifer.markers)

G

get_aggfunc_by_name() (in module junifer.stats) get_class() (in module junifer.pipeline.registry) get_coordinates() (in module junifer.data.coordinates) get_element_keys() (junifer.datagrabber.BaseDataGrabber method) (junifer.datagrabber.MultipleDataGrabber method) (junifer.datagrabber.PatternDataGrabber method) (junifer.testing.datagrabbers.OasisVBMTestingDataGrabber method) (junifer.testing.datagrabbers.PartlyCloudyTestingDataGrabber method) (junifer.testing.datagrabbers.SPMAuditoryTestingDataGrabber method) get_elements() (junifer.configs.juseless.datagrabbers.JuselessUCLA method) (junifer.datagrabber.BaseDataGrabber method) (junifer.datagrabber.DataladAOMICPIOP1 method) (junifer.datagrabber.DataladAOMICPIOP2 method) (junifer.datagrabber.DMCC13Benchmark method) (junifer.datagrabber.HCP1200 method) (junifer.datagrabber.MultipleDataGrabber method) (junifer.datagrabber.PatternDataGrabber method) (junifer.testing.datagrabbers.OasisVBMTestingDataGrabber method) (junifer.testing.datagrabbers.PartlyCloudyTestingDataGrabber method) (junifer.testing.datagrabbers.SPMAuditoryTestingDataGrabber method) get_engine() (junifer.storage.SQLiteFeatureStorage method) get_item() (junifer.datagrabber.BaseDataGrabber method) (junifer.datagrabber.DataladAOMICPIOP1 method) (junifer.datagrabber.DataladAOMICPIOP2 method) (junifer.datagrabber.DMCC13Benchmark method) (junifer.datagrabber.HCP1200 method) (junifer.datagrabber.MultipleDataGrabber method) (junifer.datagrabber.PatternDataGrabber method) (junifer.testing.datagrabbers.OasisVBMTestingDataGrabber method) (junifer.testing.datagrabbers.PartlyCloudyTestingDataGrabber method) (junifer.testing.datagrabbers.SPMAuditoryTestingDataGrabber method)

get_mask() (in module junifer.data.masks) get_output_type() (junifer.datareader.DefaultDataReader method) (junifer.markers.BaseMarker method) (junifer.pipeline.PipelineStepMixin method) (junifer.preprocess.BasePreprocessor method) (junifer.preprocess.fMRIPrepConfoundRemover method) (junifer.preprocess.Smoothing method) (junifer.preprocess.SpaceWarper method) get_parcellation() (in module junifer.data.parcellations) get_step_names() (in module junifer.pipeline.registry) get_template() (in module junifer.data.template_spaces) get_types() (junifer.datagrabber.BaseDataGrabber method) (junifer.datagrabber.MultipleDataGrabber method) get_valid_inputs() (junifer.markers.BaseMarker method) (junifer.preprocess.BasePreprocessor method) (junifer.preprocess.fMRIPrepConfoundRemover method) (junifer.preprocess.Smoothing method) (junifer.preprocess.SpaceWarper method) (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.PandasBaseFeatureStorage method) get_xfm() (in module junifer.data.template_spaces) GnuParallelLocalAdapter (class in junifer.api.queue_context)

H

HCP1200 (class in junifer.datagrabber) HDF5FeatureStorage (class in junifer.storage)

HTCondorAdapter (class in junifer.api.queue_context) HurstExponent (class in junifer.markers.complexity)

I

install() (junifer.datagrabber.DataladDataGrabber method)

inverse_transform() (junifer.external.nilearn.JuniferNiftiSpheresMasker method)

J

junifer.api module junifer.api.decorators module junifer.api.queue_context module junifer.configs.juseless.datagrabbers module junifer.data.coordinates module junifer.data.masks module junifer.data.parcellations module junifer.data.template_spaces module junifer.datagrabber module junifer.datareader module junifer.external.nilearn module junifer.markers module junifer.markers.complexity module

junifer.onthefly module junifer.onthefly.brainprint module junifer.pipeline module junifer.pipeline.registry module junifer.preprocess module junifer.stats module junifer.storage module junifer.testing.datagrabbers module junifer.utils module JuniferConnectivityMeasure (class in junifer.external.nilearn) JuniferNiftiSpheresMasker (class in junifer.external.nilearn) JuselessDataladAOMICID1000VBM (class in junifer.configs.juseless.datagrabbers) JuselessDataladCamCANVBM (class in junifer.configs.juseless.datagrabbers) JuselessDataladIXIVBM (class in junifer.configs.juseless.datagrabbers) JuselessDataladUKBVBM (class in junifer.configs.juseless.datagrabbers) JuselessUCLA (class in junifer.configs.juseless.datagrabbers)

L

list_coordinates() (in module junifer.data.coordinates) list_features() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.SQLiteFeatureStorage method)

list_masks() (in module junifer.data.masks) list_parcellations() (in module junifer.data.parcellations) load_coordinates() (in module junifer.data.coordinates) load_mask() (in module junifer.data.masks) load_parcellation() (in module junifer.data.parcellations)

M

make_executable() (in module junifer.utils) MarkerCollection (class in junifer.markers) merge_parcellations() (in module junifer.data.parcellations) module junifer.api junifer.api.decorators junifer.api.queue_context junifer.configs.juseless.datagrabbers junifer.data.coordinates junifer.data.masks junifer.data.parcellations junifer.data.template_spaces junifer.datagrabber junifer.datareader junifer.external.nilearn junifer.markers junifer.markers.complexity junifer.onthefly junifer.onthefly.brainprint junifer.pipeline junifer.pipeline.registry junifer.preprocess junifer.stats junifer.storage junifer.testing.datagrabbers junifer.utils

MultipleDataGrabber (class in junifer.datagrabber) MultiscaleEntropyAUC (class in junifer.markers.complexity)

N

normalize() (in module junifer.onthefly.brainprint)

O

OasisVBMTestingDataGrabber (class in junifer.testing.datagrabbers)

P

PandasBaseFeatureStorage (class in junifer.storage) ParcelAggregation (class in junifer.markers) PartlyCloudyTestingDataGrabber (class in junifer.testing.datagrabbers) PatternDataGrabber (class in junifer.datagrabber) PatternDataladDataGrabber (class in junifer.datagrabber) PatternValidationMixin (class in junifer.datagrabber) PermEntropy (class in junifer.markers.complexity) PipelineStepMixin (class in junifer.pipeline) pre_collect() (junifer.api.queue_context.GnuParallelLocalAdapter method) (junifer.api.queue_context.HTCondorAdapter method) (junifer.api.queue_context.QueueContextAdapter method)

pre_run() (junifer.api.queue_context.GnuParallelLocalAdapter method) (junifer.api.queue_context.HTCondorAdapter method) (junifer.api.queue_context.QueueContextAdapter method) prepare() (junifer.api.queue_context.GnuParallelLocalAdapter method) (junifer.api.queue_context.HTCondorAdapter method) (junifer.api.queue_context.QueueContextAdapter method) preprocess() (junifer.preprocess.BasePreprocessor method) (junifer.preprocess.fMRIPrepConfoundRemover method) (junifer.preprocess.Smoothing method) (junifer.preprocess.SpaceWarper method)

Q

queue() (in module junifer.api)

QueueContextAdapter (class in junifer.api.queue_context)

R

raise_error() (in module junifer.utils) RangeEntropy (class in junifer.markers.complexity) RangeEntropyAUC (class in junifer.markers.complexity) read() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.SQLiteFeatureStorage method) read_df() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.SQLiteFeatureStorage method) read_transform() (in module junifer.onthefly) register() (in module junifer.pipeline.registry) register_coordinates() (in module junifer.data.coordinates) register_datagrabber() (in module junifer.api.decorators) register_datareader() (in module junifer.api.decorators)

register_marker() (in module junifer.api.decorators) register_mask() (in module junifer.data.masks) register_parcellation() (in module junifer.data.parcellations) register_preprocessor() (in module junifer.api.decorators) register_storage() (in module junifer.api.decorators) ReHoParcels (class in junifer.markers) ReHoSpheres (class in junifer.markers) reweight() (in module junifer.onthefly.brainprint) RSSETSMarker (class in junifer.markers) run() (in module junifer.api) (junifer.api.queue_context.GnuParallelLocalAdapter method) (junifer.api.queue_context.HTCondorAdapter method) (junifer.api.queue_context.QueueContextAdapter method) run_ext_cmd() (in module junifer.utils)

S

SampleEntropy (class in junifer.markers.complexity) select() (in module junifer.stats) set_inverse_transform_request() (junifer.external.nilearn.JuniferConnectivityMeasure method) (junifer.external.nilearn.JuniferNiftiSpheresMasker method) set_transform_request() (junifer.external.nilearn.JuniferConnectivityMeasure method) (junifer.external.nilearn.JuniferNiftiSpheresMasker method) skip_file_check (junifer.datagrabber.DataladHCP1200 property) (junifer.datagrabber.PatternDataGrabber property) Smoothing (class in junifer.preprocess) SpaceWarper (class in junifer.preprocess) SphereAggregation (class in junifer.markers) SPMAuditoryTestingDataGrabber (class in junifer.testing.datagrabbers) SQLiteFeatureStorage (class in junifer.storage) store() (junifer.markers.BaseMarker method) (junifer.storage.BaseFeatureStorage method)

store_df() (junifer.storage.PandasBaseFeatureStorage method) (junifer.storage.SQLiteFeatureStorage method) store_matrix() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.SQLiteFeatureStorage method) store_metadata() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.SQLiteFeatureStorage method) store_scalar_table() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) store_timeseries() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.PandasBaseFeatureStorage method) store_vector() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.PandasBaseFeatureStorage method)

T

TemporalSNRParcels (class in junifer.markers)

TemporalSNRSpheres (class in junifer.markers) transform_single_imgs() (junifer.external.nilearn.JuniferNiftiSpheresMasker method)

U

update_meta() (junifer.pipeline.UpdateMetaMixin method)

UpdateMetaMixin (class in junifer.pipeline)

V

validate() (junifer.markers.MarkerCollection method) (junifer.pipeline.PipelineStepMixin method) (junifer.storage.BaseFeatureStorage method) validate_input() (junifer.datareader.DefaultDataReader method) (junifer.markers.BaseMarker method) (junifer.pipeline.PipelineStepMixin method) (junifer.preprocess.BasePreprocessor method)

validate_patterns() (junifer.datagrabber.PatternValidationMixin method)

W

warn_with_log() (in module junifer.utils) WeightedPermEntropy (class in junifer.markers.complexity)

winsorized_mean() (in module junifer.stats) WorkDirManager() (in module junifer.pipeline)