Index

A

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

ALFFMaps (class in junifer.markers) ALFFParcels (class in junifer.markers) ALFFSpheres (class in junifer.markers) AssetDumperDispatcher (class in junifer.pipeline) AssetLoaderDispatcher (class in junifer.pipeline)

B

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

BasePipelineDataRegistry (class in junifer.data) BasePreprocessor (class in junifer.preprocess) BrainPrint (class in junifer.markers) build_component_instance() (junifer.pipeline.PipelineComponentRegistry method)

C

cleanup() (junifer.datagrabber.DataladDataGrabber method) cleanup_elementdir() (junifer.pipeline.WorkDirManager method) clear() (junifer.data.DataDispatcher method) (junifer.datagrabber.DataTypeManager method) (junifer.pipeline.AssetDumperDispatcher method) (junifer.pipeline.AssetLoaderDispatcher method) collect() (in module junifer.api.functions) (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) components (junifer.pipeline.PipelineComponentRegistry property) compute() (junifer.markers.ALFFMaps method) (junifer.markers.ALFFParcels method) (junifer.markers.ALFFSpheres method) (junifer.markers.BaseMarker method) (junifer.markers.BrainPrint method) (junifer.markers.CrossParcellationFC method) (junifer.markers.MapsAggregation method) (junifer.markers.ParcelAggregation method) (junifer.markers.ReHoMaps method) (junifer.markers.ReHoParcels method) (junifer.markers.ReHoSpheres method) (junifer.markers.RSSETSMarker method) (junifer.markers.SphereAggregation method)

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) ConfigManager (class in junifer.utils) configure_logging() (in module junifer.utils) CoordinatesRegistry (class in junifer.data) count() (in module junifer.stats) CrossParcellationFC (class in junifer.markers)

D

dag() (junifer.api.queue_context.HTCondorAdapter method) data (junifer.data.BasePipelineDataRegistry property) datadir (junifer.datagrabber.BaseDataGrabber property) (junifer.datagrabber.DataladDataGrabber property) DataDispatcher (class in junifer.data) 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) DataObjectDumper (class in junifer.pipeline) DataTypeManager (class in junifer.datagrabber) DataTypeSchema (class in junifer.datagrabber) deep_update() (in module junifer.utils)

DefaultDataReader (class in junifer.datareader) delete() (junifer.utils.ConfigManager method) delete_element_tempdir() (junifer.pipeline.WorkDirManager method) delete_tempdir() (junifer.pipeline.WorkDirManager method) deregister() (junifer.data.BasePipelineDataRegistry method) (junifer.data.CoordinatesRegistry method) (junifer.data.MapsRegistry method) (junifer.data.MaskRegistry method) (junifer.data.ParcellationRegistry method) (junifer.pipeline.PipelineComponentRegistry method) deregister_data() (in module junifer.data) DMCC13Benchmark (class in junifer.datagrabber) dump() (junifer.pipeline.BaseDataDumpAsset method) (junifer.pipeline.DataObjectDumper method)

E

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

element_to_index() (junifer.storage.PandasBaseFeatureStorage static method) elementdir (junifer.pipeline.WorkDirManager property) elements() (junifer.api.queue_context.GnuParallelLocalAdapter method)

F

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

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

G

get() (junifer.data.BasePipelineDataRegistry method) (junifer.data.CoordinatesRegistry method) (junifer.data.MapsRegistry method) (junifer.data.MaskRegistry method) (junifer.data.ParcellationRegistry method) (junifer.utils.ConfigManager method) get_aggfunc_by_name() (in module junifer.stats) get_class() (junifer.pipeline.PipelineComponentRegistry method) get_data() (in module junifer.data) 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_element_tempdir() (junifer.pipeline.WorkDirManager 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_tempdir() (junifer.pipeline.WorkDirManager method) get_template() (in module junifer.data) get_types() (junifer.datagrabber.BaseDataGrabber method) (junifer.datagrabber.MultipleDataGrabber method) get_valid_inputs() (junifer.markers.BaseMarker method) (junifer.preprocess.BasePreprocessor method) (junifer.storage.BaseFeatureStorage method) get_xfm() (in module junifer.data) 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.decorators module junifer.api.functions module junifer.api.queue_context module junifer.cli.parser module junifer.configs.juseless.datagrabbers module junifer.data 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.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 (junifer.data.BasePipelineDataRegistry property) list_data() (in module junifer.data) list_elements() (in module junifer.api.functions) list_features() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.SQLiteFeatureStorage method) load() (junifer.data.BasePipelineDataRegistry method) (junifer.data.CoordinatesRegistry method) (junifer.data.MapsRegistry method) (junifer.data.MaskRegistry method) (junifer.data.ParcellationRegistry method) (junifer.pipeline.BaseDataDumpAsset class method) (junifer.pipeline.DataObjectDumper method)

load_data() (in module junifer.data)

M

make_executable() (in module junifer.utils) MapsAggregation (class in junifer.markers) MapsRegistry (class in junifer.data) MarkerCollection (class in junifer.pipeline) MaskRegistry (class in junifer.data) module junifer.api.decorators junifer.api.functions junifer.api.queue_context junifer.cli.parser junifer.configs.juseless.datagrabbers junifer.data junifer.datagrabber junifer.datareader junifer.external.nilearn junifer.markers junifer.markers.complexity junifer.onthefly junifer.onthefly.brainprint junifer.pipeline 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)

OptionalTypeSchema (class in junifer.datagrabber)

P

PandasBaseFeatureStorage (class in junifer.storage) ParcelAggregation (class in junifer.markers) ParcellationRegistry (class in junifer.data) parse_elements() (in module junifer.cli.parser) parse_yaml() (in module junifer.cli.parser) 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) PipelineComponentRegistry (class in junifer.pipeline) PipelineStepMixin (class in junifer.pipeline) popitem() (junifer.data.DataDispatcher method) (junifer.datagrabber.DataTypeManager method) (junifer.pipeline.AssetDumperDispatcher method) (junifer.pipeline.AssetLoaderDispatcher method)

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) (junifer.preprocess.TemporalFilter method) (junifer.preprocess.TemporalSlicer method)

Q

queue() (in module junifer.api.functions)

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() (junifer.data.BasePipelineDataRegistry method) (junifer.data.CoordinatesRegistry method) (junifer.data.MapsRegistry method) (junifer.data.MaskRegistry method) (junifer.data.ParcellationRegistry method) (junifer.pipeline.PipelineComponentRegistry method) register_data() (in module junifer.data) register_data_dump_asset() (in module junifer.api.decorators)

register_data_registry() (in module junifer.api.decorators) register_data_type() (in module junifer.datagrabber) register_datagrabber() (in module junifer.api.decorators) register_datareader() (in module junifer.api.decorators) register_marker() (in module junifer.api.decorators) register_preprocessor() (in module junifer.api.decorators) register_storage() (in module junifer.api.decorators) ReHoMaps (class in junifer.markers) ReHoParcels (class in junifer.markers) ReHoSpheres (class in junifer.markers) reset() (in module junifer.api.functions) reweight() (in module junifer.onthefly.brainprint) root_tempdir (junifer.pipeline.WorkDirManager property) RSSETSMarker (class in junifer.markers) run() (in module junifer.api.functions) (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() (junifer.utils.ConfigManager method) 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) setdefault() (junifer.data.DataDispatcher method) (junifer.datagrabber.DataTypeManager method) (junifer.pipeline.AssetDumperDispatcher method) (junifer.pipeline.AssetLoaderDispatcher 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) step_components() (junifer.pipeline.PipelineComponentRegistry method) steps (junifer.pipeline.PipelineComponentRegistry property)

storage_type() (junifer.markers.BaseMarker method) 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_timeseries_2d() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) store_vector() (junifer.storage.BaseFeatureStorage method) (junifer.storage.HDF5FeatureStorage method) (junifer.storage.PandasBaseFeatureStorage method)

T

TemporalFilter (class in junifer.preprocess) TemporalSlicer (class in junifer.preprocess) TemporalSNRMaps (class in junifer.markers)

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.pipeline.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) workdir (junifer.pipeline.WorkDirManager property) WorkDirManager (class in junifer.pipeline)