Package index • fmristore

All functions

H5NeuroVec-class: H5NeuroVec Class

H5NeuroVec(): H5NeuroVec Constructor

H5NeuroVecSeq-class: H5NeuroVecSeq Class

H5NeuroVecSeq(): H5NeuroVecSeq constructor

H5NeuroVol-class: H5NeuroVol Class

H5NeuroVol(): H5NeuroVol Constructor

H5ParcellatedMultiScan-class: H5ParcellatedMultiScan Class

H5ParcellatedMultiScan(): Constructor for H5ParcellatedMultiScan Objects

H5ParcellatedScan-class: H5ParcellatedScan Class

H5ParcellatedScan(): Constructor for H5ParcellatedScan Objects

H5ParcellatedScanSummary-class: H5ParcellatedScanSummary Class

H5ParcellatedScanSummary(): Constructor for H5ParcellatedScanSummary Objects

H5_ATTRS: HDF5 attribute constants

H5_DSETS: HDF5 dataset name constants

H5_PATHS: HDF5 Path Constants

LabeledVolumeSet-class: LabeledVolumeSet Class

LatentNeuroVec-class: LatentNeuroVec Class

LatentNeuroVec(): Create a Latent Space Representation of Neuroimaging Data

as.array(<LatentNeuroVec>): Convert LatentNeuroVec to Array

as.data.frame(): Convert to Data Frame

as.matrix(): Convert to Matrix

as_h5(<NeuroVol>): Convert a NeuroVol to HDF5 Format (as_h5 Method)

as_h5(): Generic function to convert R objects to HDF5 format

basis(): Get the basis matrix (temporal components)

`$`(<H5ParcellatedMultiScan>): Accessor Methods for H5ParcellatedMultiScan Access Slots/Properties using `$`

close(): Close an Object

cluster_metadata(<H5ParcellatedMultiScan>): Get cluster metadata

cluster_metadata(): Get cluster metadata

clusters(): Get the cluster map object

concat(<LatentNeuroVec>,<LatentNeuroVec>): Concatenate LatentNeuroVec Objects

configure_memory_warnings(): Configure Memory Usage Warnings

detect_h5_type(): Detect the type of data in an HDF5 file

`[`(<H5ParcellatedScan>,<ANY>,<missing>,<ANY>) `[`(<H5ParcellatedScanSummary>,<ANY>,<ANY>,<ANY>) `[`(<H5ParcellatedScanSummary>,<ANY>,<missing>,<ANY>) `[`(<H5NeuroVec>,<numeric>,<numeric>,<ANY>) `[[`(<LabeledVolumeSet>,<numeric>) `[[`(<LabeledVolumeSet>,<character>) `[[`(<LatentNeuroVec>,<numeric>) `[`(<LatentNeuroVec>,<numeric>,<numeric>,<ANY>) `[`(<LatentNeuroVec>,<ANY>,<ANY>,<ANY>): Extract data from H5ParcellatedScan with missing j parameter

get_memory_settings(): Get Current Memory Warning Settings

h5file(<H5ParcellatedArray>) h5file(<H5ParcellatedMultiScan>) h5file(<H5ParcellatedScan>) h5file(<H5ParcellatedScanSummary>) h5file(<H5NeuroVecSeq>): Get the HDF5 file object via generic

h5file(): Get the HDF5 file object

loadings(): Get the loadings matrix (spatial components)

make_run_full(): Constructor for H5ParcellatedScan Objects

make_run_summary(): Constructor for H5ParcellatedScanSummary Objects

map(): Get the index map volume

mask(): Get the mask volume

matrix_concat(): Concatenate Cluster Summary Matrices Across Runs (Generic)

n_scans(<H5ParcellatedMultiScan>) n_scans(<H5NeuroVecSeq>): Get number of scans

n_scans(): Get the number of scans

neurovecseq_to_h5(): Convert NeuroVecSeq to HDF5

offset(): Get the offset vector

read_dataset(<character>): Read Dataset from HDF5 File

read_dataset(): Read Dataset from HDF5

read_labeled_vec(): Read a Labeled Neuroimaging Volume Set from HDF5

scan_metadata(<H5ParcellatedMultiScan>): Get scan metadata

scan_metadata(): Get scan metadata

scan_names(<H5ParcellatedMultiScan>) scan_names(<H5NeuroVecSeq>): Get scan names

scan_names(): Get the scan names

series(): Extract Time Series Data

series_concat(): Concatenate Voxel Time Series Across Runs (Generic)

show(<H5NeuroVec>): Display an H5NeuroVec object

show(<H5NeuroVol>): Show Method for H5NeuroVol

show(<LabeledVolumeSet>): show method for LabeledVolumeSet

show(<H5ParcellatedScan>) show(<H5ParcellatedScanSummary>) show(<H5ParcellatedMultiScan>) show(<LatentNeuroVec>): Show Method for H5ParcellatedScanSummary

`[`(<H5NeuroVol>,<ANY>,<ANY>,<ANY>): 3D bracket subsetting for H5NeuroVol (handles partial arguments)

`[`(<H5ParcellatedScan>,<ANY>,<ANY>,<ANY>): Subset an H5ParcellatedScan Object

`[`(<LabeledVolumeSet>,<ANY>,<ANY>,<ANY>): 4D Array-like subsetting for LabeledVolumeSet

validate_latent_file(): Validate HDF5 File Against Latent Spec

write_cluster_result(): Write Clustering Results to HDF5

write_dataset(): Write Dataset to HDF5

write_labeled_vec(): Write a NeuroVec to an HDF5 file with NIfTI-like quaternions

write_parcellated_experiment_h5() write_clustered_experiment_h5(): Write Parcellated Experiment Data to HDF5

write_vec(<LatentNeuroVec>,<character>,<missing>,<missing>): Write LatentNeuroVec to HDF5 File