addDim-methods | Generic function to add a dimension to an object |
AFNIFileDescriptor-class | AFNIFileDescriptor |
AFNIMetaInfo-class | AFNIMetaInfo |
as.array-BrainData-method | convert 'BrainData' instance to array |
as.list-methods | as.list |
as.logical-methods | as.logical |
as.mask-methods | Convert to a LogicalBrainVolume |
as.matrix-BrainData-method | convert 'BrainData' instance to matrix |
as.matrix-methods | as.matrix |
as-methods | conversion from DenseBrainVolume to array |
as.numeric-methods | Convert SparseBrainVolume to numeric |
as.raster-methods | as.raster |
as.sparse-methods | Convert to from dense to sparse representation |
as.vector-BrainData-method | convert 'BrainData' instance to vector |
axes-methods | Generic getter function to extract image axes |
AxisSet1D-class | AxisSet1D |
AxisSet2D-class | AxisSet2D |
AxisSet3D-class | AxisSet3D |
AxisSet4D-class | AxisSet4D |
AxisSet5D-class | AxisSet5D |
AxisSet-class | Base |
axisToIndex-methods | Generic function to convert 1-dimensional real axis... |
Base-class | Base |
BaseMetaInfo-class | BaseMetaInfo |
BaseSource-class | BaseSource |
BinaryReader | BinaryReader |
BinaryReader-class | BinaryReader |
BinaryWriter-class | BinaryWriter |
BootstrapSearchlight | Create a searchlight iterator that samples regions from... |
bounds-methods | Generic function to extract the spatial bounds (origin + dim... |
BrainBucket-class | BrainBucket |
BrainBucketSource-class | BrainBucketSource |
BrainData-class | BrainData |
BrainFileDescriptor-class | BrainFileDescriptor |
BrainFileSource-class | BrainFileSource Base class for representing a data source for... |
BrainMetaInfo-class | BrainMetaInfo This class contains meta information from an... |
BrainSlice | BrainSlice constructor |
BrainSlice-class | BrainSlice |
BrainSource-class | BrainSource |
BrainSpace | Constructor function for 'BrainSpace' class |
BrainSpace-class | BrainSpace |
BrainSurface-class | BrainSurface |
BrainSurfaceSource-class | BrainSurfaceSource |
BrainSurfaceVector-class | BrainSurfaceVector |
BrainSurfaceVectorSource-class | BrainSurfaceVectorSource |
BrainVector-class | BrainVector |
BrainVectorSource | BrainVectorSource |
BrainVectorSource-class | BrainVectorSource |
BrainVolume | BrainVolume |
BrainVolume-class | Base class for image representing 3D volumetric data. |
BrainVolumeSource-class | BrainVolume BrainVolumeSource A class is used to produce a... |
close-methods | close |
clusterCenters-methods | clusterCenters |
ClusteredBrainVolume-class | ClusteredBrainVolume |
ColumnReader | ColumnReader |
ColumnReader-class | ColumnReader |
concat-methods | Concatenate two objects |
connComp3D | Extract connected components from a 3D mask |
connComp-methods | Find connected components |
coords-methods | Extract coordinates |
coordToGrid-methods | Generic function to convert N-dimensional real world... |
coordToIndex-methods | Generic function to convert N-dimensional real world... |
dataFileMatches-methods | Generic function to test whether a file name conforms to the... |
dataFile-methods | Generic function to get the name of the data file, given a... |
dataReader-methods | Generic function to create data reader |
DenseBrainVector-class | DenseBrainVector |
DenseBrainVolume-class | DenseBrainVolume |
dim-BrainData-method | dim of 'BrainData' object |
dim-BrainSpace-method | dim |
dim-FileMetaInfo-method | dim of 'FileMetaInfo' |
dropDim-methods | Generic function to drop a dimension from an object |
eachSeries-methods | Generic functions to apply a function to each series of a 4D... |
eachSlice-methods | Generic functions to apply a function to each (2D) slice of... |
eachVolume-methods | Generic function to apply a function to each volume of a... |
fileMatches-methods | Generic function to test whether a file name conforms to the... |
FileMetaInfo-class | FileMetaInfo |
fill-methods | Generic function to map values from one set to another using... |
FreesurferAsciiSurfaceFileDescriptor-class | FresurferAsciiSurfaceFileDescriptor |
FreeSurferSurfaceGeometryMetaInfo-class | FreeSurferSurfaceGeometryMetaInfo This class contains meta... |
gridToCoord-methods | Generic function to convert N-dimensional grid coordinate... |
gridToIndex-methods | Generic function to convert N-dimensional grid coordinate to... |
headerFileMatches-methods | Generic function to test whether a file name conforms to the... |
headerFile-methods | Generic function to get the name of the header file, given a... |
imageGrid | imageGrid |
image-methods | image |
IndexLookupVolume-class | IndexLookupVolume |
indexToCoord-methods | Generic function to convert 1D indices to N-dimensional real... |
indexToGrid-methods | Generic function to convert 1D indices to N-dimensional grid... |
indices-methods | Extract indices |
internal-methods | .isExtension |
inverseTrans-methods | Generic getter to extract inverse image coordinate... |
Kernel | Create a Kernel object |
Kernel-class | Kernel |
Layer | Layer |
Layer-class | Layer |
length-methods | Get length of 'BrainVector'. This is the numbe rof volumes in... |
loadBucket | loadBucket |
loadData-methods | Generic function to load data from a data source |
loadFSSurface | load Freesurfer ascii surface |
loadSurface | load an surface from a set of files |
loadVector | loadVector |
loadVolume | Load an image volume from a file |
loadVolumeList | loadVolList |
LogicalBrainVolume-class | LogicalBrainVolume |
lookup-methods | Index Lookup operation |
makeVector | makeVector |
makeVolume | makeVolume |
map-methods | Generic function to apply a function to an object |
mapToColors | mapToColors |
matchAnatomy2D | given two named axes return AxisSet2D singleton |
matchAnatomy3D | given three named axes return AxisSet3D singleton |
matrixToVolumeList | matrixToVolumeList converts a matrix to a list of... |
mergePartitions-methods | mergePartitions |
MNI_SPACE_1MM | MNI SPACE 1MM |
NamedAxis-class | NamedAxis |
names-methods | names |
ndim-methods | Generic function to extract the number of dimensions of an... |
neuroim | neuroim |
NIfTIFileDescriptor-class | NIfTIFileDescriptor |
NIfTIMetaInfo-class | Constructor for 'NIfTIMetaInfo' class |
NIMLSurfaceDataMetaInfo | Constructor for 'NIMLSurfaceDataMetaInfo' class |
NIMLSurfaceDataMetaInfo-class | NIMLSurfaceDataMetaInfo This class contains meta information... |
NIMLSurfaceFileDescriptor-class | NIMLSurfaceFileDescriptor |
NullMetaInfo-class | NullMetaInfo |
numClusters-methods | numClusters |
origin-methods | Generic getter to extract image origin |
overlay-methods | overlay two objects |
partition-methods | partition |
permMat-methods | Extract permutation matrix |
pick-methods | pick |
print-AxisSet2D-method | print a 'AxisSet2D' instance |
print-AxisSet3D-method | print a 'AxisSet3D' instance |
print-methods | Generic function to print an object |
print-NamedAxis-method | print a 'NamedAxis' |
RandomSearchlight | Create an Random Searchlight iterator |
readAFNIHeader | readAFNIHeader |
readColumns-methods | Generic function to read a set of column vector from an input... |
readElements-methods | Generic function to read a sequence of elements from an input... |
readHeader | read header information of an image file |
readMetaInfo-methods | Generic function to read image meta info given a file and a... |
RegionCube | Create A Cuboid Region of Interest |
RegionSphere | Create A Spherical Region of Interest |
RegionSquare | Create a square region of interest where the z-dimension is... |
render-methods | Render an image to create a drawable image. |
renderSlice-methods | Render a slice at z coordinate |
ROIVolume | Create an instance of class ROIVolume |
ROIVolume-class | ROIVolume |
scaleSeries-methods | Generic functions to scale (center and/or normalize by... |
Searchlight | Create an exhaustive searchlight iterator |
seriesIter | seriesIter |
series-methods | Extract vector series from object |
show-AxisSet1D-method | show an 'AxisSet1D' |
show-AxisSet2D-method | show an 'AxisSet2D' |
show-AxisSet3D-method | show an 'AxisSet3D' |
show-AxisSet4D-method | show an 'AxisSet4D' |
show-BaseMetaInfo-method | show a 'BaseMetaInfo' |
show-BrainSpace-method | show a 'BrainSpace' |
show-BrainVector-method | show a 'BrainVector' |
show-BrainVectorSource-method | show a 'BrainVectorSource' |
show-BrainVolume-method | show a 'BrainVolume' |
show-FileMetaInfo-method | show a 'FileMetaInfo' |
show-NamedAxis-method | show an 'NamedAxis' |
show-NullMetaInfo-method | show a 'NullMetaInfo' |
show-ROIVolume-method | show an 'ROIVolime' |
show-SparseBrainVector-method | show a 'SparseBrainVector' |
show-SurfaceDataMetaInfo-method | show an 'SurfaceDataMetaInfo' |
show-SurfaceGeometryMetaInfo-method | show an 'SurfaceGeometryMetaInfo' |
sliceData | sliceData |
slice-methods | Extract a 2D slice from an image volume |
space-methods | Generic function to extract geometric properties of an image. |
spacing-methods | Generic function to extract the voxel dimensions of an image |
SparseBrainVector-class | SparseBrainVector |
SparseBrainVectorSource-class | SparseBrainVectorSource |
SparseBrainVolume-class | SparseBrainVolume |
splitFill-methods | Generic function to fill disjoint sets of values with the... |
splitReduce-methods | Generic function to summarize subsets of an object by first... |
splitScale-methods | Generic function to center/scale row-subsets of a matrix or... |
stripExtension-methods | Generic function to strip extension from file name, given a... |
sub-BrainBucket-index-missing-ANY-method | extract labeled volume from 'BrainBucket' |
sub-ROIVolume-numeric-missing-ANY-method | extract data from 'ROIVolume' |
sub-SparseBrainVector-missing-missing-ANY-method | extractor |
sub-SparseBrainVector-missing-numeric-ANY-method | extractor |
sub-SparseBrainVector-numeric-missing-ANY-method | extractor |
sub-SparseBrainVector-numeric-numeric-ANY-method | extractor |
sub-SparseBrainVolume-matrix-missing-ANY-method | extractor |
sub-SparseBrainVolume-missing-missing-ANY-method | extractor |
sub-SparseBrainVolume-missing-numeric-ANY-method | extractor |
sub-SparseBrainVolume-numeric-missing-missing-method | extractor |
sub-SparseBrainVolume-numeric-numeric-ANY-method | extractor |
sub-sub-BrainBucket-index-missing-method | extract labeled volume from 'BrainBucket' |
subVector-methods | Generic function to extract a sub-vector from a 'BrainVector'... |
SurfaceDataMetaInfo | Constructor for 'SurfaceDataMetaInfo' class |
SurfaceDataMetaInfo-class | SurfaceDataMetaInfo This class contains meta information for... |
SurfaceGeometryMetaInfo | Constructor for 'SurfaceGeometryMetaInfo' class |
SurfaceGeometryMetaInfo-class | SurfaceGeometryMetaInfo This class contains meta information... |
takeSeries-methods | Generic function to extract a set of series from a 4D image |
takeVolume-methods | Generic function to extract a one or more individual volumes... |
tesselate-methods | tesselate |
trans-methods | Generic getter to extract image coordinate transformation |
values-methods | Generic function to extract data values of object |
voxels-methods | extract voxel coordinates |
writeElements-methods | Generic function to write a sequence of elements from an... |
writeVector-methods | Generic function to write a 4D image vector to disk |
writeVolume-methods | Generic function to write a 3D image volume to disk |
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