neuroim-package	neuroim
+,Layer,Layer-method	overlay-methods
+,Overlay,Layer-method	overlay-methods
.concat4D	internal-methods
.extract.array	internal-methods
.getDataCode	internal-methods
.getDataSize	internal-methods
.getDataStorage	internal-methods
.getEndian	internal-methods
.getRStorage	internal-methods
.gridToIndex	internal-methods
.gridToIndex3D	internal-methods
.indexToGrid	internal-methods
.isExtension	internal-methods
.matrixToQuatern	internal-methods
.niftiExt	internal-methods
addDim	addDim-methods
addDim,BrainSpace,numeric-method	addDim-methods
AFNIFileDescriptor-class	AFNIFileDescriptor-class
AFNIMetaInfo	AFNIMetaInfo-class
AFNIMetaInfo-class	FileMetaInfo-class
as	as-methods
as.array,BrainData-method	as.array-BrainData-method
as.list,BrainVector-method	as.list-methods
as.list,SparseBrainVector-method	as.list-methods
as.logical,BrainVolume-method	as.logical-methods
as.mask	as.mask-methods
as.mask,BrainVolume,missing-method	as.mask-methods
as.mask,BrainVolume,numeric-method	as.mask-methods
as.matrix,BrainData-method	as.matrix-BrainData-method
as.matrix,DenseBrainVector-method	as.matrix-methods
as.matrix,SparseBrainVector-method	as.matrix-methods
as.numeric,SparseBrainVolume-method	as.numeric-methods
as.raster,Layer-method	as.raster-methods
as.sparse	as.sparse-methods
as.sparse,DenseBrainVector,LogicalBrainVolume-method	as.sparse-methods
as.sparse,DenseBrainVector,numeric-method	as.sparse-methods
as.sparse,DenseBrainVolume,LogicalBrainVolume-method	as.sparse-methods
as.sparse,DenseBrainVolume,numeric-method	as.sparse-methods
as.vector,BrainData-method	as.vector-BrainData-method
axes	axes-methods
axes,BrainData-method	axes-methods
axes,BrainSpace-method	axes-methods
AxisSet-class	AxisSet-class
AxisSet1D-class	AxisSet1D-class
AxisSet2D-class	AxisSet2D-class
AxisSet3D-class	AxisSet3D-class
AxisSet4D-class	AxisSet4D-class
AxisSet5D-class	AxisSet5D-class
axisToIndex	axisToIndex-methods
axisToIndex,BrainSpace,numeric,numeric-method	axisToIndex-methods
Base-class	Base-class
BaseMetaInfo-class	BaseMetaInfo-class
BaseSource-class	BaseSource-class
BinaryReader	BinaryReader
BinaryReader-class	BinaryReader-class
BinaryWriter	BinaryWriter-class
BinaryWriter-class	BinaryWriter-class
BootstrapSearchlight	BootstrapSearchlight
bounds	bounds-methods
bounds,BrainData-method	bounds-methods
bounds,BrainSpace-method	bounds-methods
BrainBucket	BrainBucket-class
BrainBucket-class	BrainBucket-class
BrainBucketSource	BrainBucketSource-class
BrainBucketSource-class	BrainBucketSource-class
BrainData-class	BrainData-class
BrainFileDescriptor-class	BrainFileDescriptor-class
BrainFileSource-class	BrainFileSource-class
BrainMetaInfo	BrainMetaInfo-class
BrainMetaInfo-class	BrainMetaInfo-class
BrainSlice	BrainSlice
BrainSlice-class	BrainSlice-class
BrainSource-class	BrainSource-class
BrainSpace	BrainSpace
BrainSpace-class	BrainSpace-class
BrainSurface-class	BrainSurface-class
BrainSurfaceSource	BrainSurfaceSource-class
BrainSurfaceSource-class	BrainSurfaceSource-class
BrainSurfaceVector-class	BrainSurfaceVector-class
BrainSurfaceVectorSource-class	BrainSurfaceVectorSource-class
BrainVector	BrainVector-class
BrainVector-class	BrainVector-class
BrainVectorSource	BrainVectorSource
BrainVectorSource-class	BrainVectorSource-class
BrainVolume	BrainVolume
BrainVolume-class	BrainVolume-class
BrainVolumeSource	BrainVolumeSource-class
BrainVolumeSource-class	BrainVolumeSource-class
close,BinaryReader-method	close-methods
close,BinaryWriter-method	close-methods
clusterCenters	clusterCenters-methods
clusterCenters,ClusteredBrainVolume,matrix,missing-method	clusterCenters-methods
ClusteredBrainVolume	ClusteredBrainVolume-class
ClusteredBrainVolume-class	ClusteredBrainVolume-class
ColumnReader	ColumnReader
ColumnReader-class	ColumnReader-class
concat	concat-methods
concat,BrainVector,BrainVector-method	concat-methods
concat,BrainVector,BrainVolume-method	concat-methods
concat,BrainVolume,BrainVector-method	concat-methods
concat,DenseBrainVolume,DenseBrainVolume-method	concat-methods
concat,SparseBrainVector,SparseBrainVector-method	concat-methods
connComp	connComp-methods
connComp,BrainVolume-method	connComp-methods
connComp3D	connComp3D
coords	coords-methods
coords,IndexLookupVolume-method	coords-methods
coords,ROIVolume-method	coords-methods
coords,SparseBrainVector-method	coords-methods
coordToGrid	coordToGrid-methods
coordToGrid,BrainSpace,matrix-method	coordToGrid-methods
coordToGrid,BrainSpace,numeric-method	coordToGrid-methods
coordToGrid,BrainVolume,matrix-method	coordToGrid-methods
coordToIndex	coordToIndex-methods
coordToIndex,BrainSpace,matrix-method	coordToIndex-methods
coordToIndex,BrainSpace,numeric-method	coordToIndex-methods
coordToIndex,BrainVolume,matrix-method	coordToIndex-methods
dataFile	dataFile-methods
dataFile,BrainFileDescriptor,character-method	dataFile-methods
dataFileMatches	dataFileMatches-methods
dataFileMatches,BrainFileDescriptor,character-method	dataFileMatches-methods
dataReader	dataReader-methods
dataReader,AFNIMetaInfo-method	dataReader-methods
dataReader,NIfTIMetaInfo-method	dataReader-methods
dataReader,NIMLSurfaceDataMetaInfo-method	dataReader-methods
DenseBrainVector	DenseBrainVector-class
DenseBrainVector-class	DenseBrainVector-class
DenseBrainVolume	DenseBrainVolume-class
DenseBrainVolume-class	DenseBrainVolume-class
dim,BrainData-method	dim-BrainData-method
dim,BrainSpace-method	dim-BrainSpace-method
dim,FileMetaInfo-method	dim-FileMetaInfo-method
dropDim	dropDim-methods
dropDim,AxisSet2D,missing-method	dropDim-methods
dropDim,AxisSet2D,numeric-method	dropDim-methods
dropDim,AxisSet3D,missing-method	dropDim-methods
dropDim,AxisSet3D,numeric-method	dropDim-methods
dropDim,BrainSpace,missing-method	dropDim-methods
dropDim,BrainSpace,numeric-method	dropDim-methods
eachSeries	eachSeries-methods
eachSeries,BrainVector,function,missing-method	eachSeries-methods
eachSeries,SparseBrainVector,function,logical-method	eachSeries-methods
eachSlice	eachSlice-methods
eachSlice,BrainVolume,function,logical-method	eachSlice-methods
eachSlice,BrainVolume,function,missing-method	eachSlice-methods
eachVolume	eachVolume-methods
eachVolume,BrainBucket,function,logical,ANY-method	eachVolume-methods
eachVolume,BrainBucket,function,missing,missing-method	eachVolume-methods
eachVolume,BrainVector,function,logical,ANY-method	eachVolume-methods
eachVolume,BrainVector,function,missing,BrainVolume-method	eachVolume-methods
eachVolume,BrainVector,function,missing,missing-method	eachVolume-methods
eachVolume,SparseBrainVector,function,logical,missing-method	eachVolume-methods
eachVolume,SparseBrainVector,function,missing,LogicalBrainVolume-method	eachVolume-methods
eachVolume,SparseBrainVector,function,missing,missing-method	eachVolume-methods
fileMatches	fileMatches-methods
fileMatches,BrainFileDescriptor,character-method	fileMatches-methods
FileMetaInfo-class	FileMetaInfo-class
fill	fill-methods
fill,BrainVolume,list-method	fill-methods
fill,BrainVolume,matrix-method	fill-methods
FreesurferAsciiSurfaceFileDescriptor-class	FreesurferAsciiSurfaceFileDescriptor-class
FreesurferSurfaceGeometryMetaInfo-class	FreeSurferSurfaceGeometryMetaInfo-class
gridToCoord	gridToCoord-methods
gridToCoord,BrainSpace,matrix-method	gridToCoord-methods
gridToCoord,BrainVolume,matrix-method	gridToCoord-methods
gridToIndex	gridToIndex-methods
gridToIndex,BrainSlice,matrix-method	gridToIndex-methods
gridToIndex,BrainSpace,matrix-method	gridToIndex-methods
gridToIndex,BrainSpace,numeric-method	gridToIndex-methods
gridToIndex,BrainVolume,matrix-method	gridToIndex-methods
gridToIndex,BrainVolume,numeric-method	gridToIndex-methods
headerFile	headerFile-methods
headerFile,BrainFileDescriptor,character-method	headerFile-methods
headerFileMatches	headerFileMatches-methods
headerFileMatches,BrainFileDescriptor,character-method	headerFileMatches-methods
image,BrainVolume-method	image-methods
image,Layer-method	image-methods
image,Overlay-method	image-methods
imageGrid	imageGrid
IndexLookupVolume	IndexLookupVolume-class
IndexLookupVolume-class	IndexLookupVolume-class
indexToCoord	indexToCoord-methods
indexToCoord,BrainSpace,index-method	indexToCoord-methods
indexToCoord,BrainVolume,index-method	indexToCoord-methods
indexToGrid	indexToGrid-methods
indexToGrid,BrainSlice,index-method	indexToGrid-methods
indexToGrid,BrainSpace,index-method	indexToGrid-methods
indexToGrid,BrainVector,index-method	indexToGrid-methods
indexToGrid,BrainVolume,index-method	indexToGrid-methods
indices	indices-methods
indices,IndexLookupVolume-method	indices-methods
indices,ROIVolume-method	indices-methods
indices,SparseBrainVector-method	indices-methods
inverseTrans	inverseTrans-methods
inverseTrans,BrainData-method	inverseTrans-methods
inverseTrans,BrainSpace-method	inverseTrans-methods
Kernel	Kernel
Kernel-class	Kernel-class
Layer	Layer
Layer-class	Layer-class
length,BrainVector-method	length-methods
length,ROIVolume-method	length-methods
loadBucket	loadBucket
loadData	loadData-methods
loadData,BrainBucketSource-method	loadData-methods
loadData,BrainSurfaceSource-method	loadData-methods
loadData,BrainVectorSource-method	loadData-methods
loadData,BrainVolumeSource-method	loadData-methods
loadData,SparseBrainVectorSource-method	loadData-methods
loadFSSurface	loadFSSurface
loadSurface	loadSurface
loadVector	loadVector
loadVolume	loadVolume
loadVolumeList	loadVolumeList
LogicalBrainVolume	LogicalBrainVolume-class
LogicalBrainVolume-class	LogicalBrainVolume-class
lookup	lookup-methods
lookup,IndexLookupVolume,numeric-method	lookup-methods
lookup,SparseBrainVector,numeric-method	lookup-methods
makeVector	makeVector
makeVolume	makeVolume
map	map-methods
map,BrainVolume,Kernel-method	map-methods
mapToColors	mapToColors
matchAnatomy2D	matchAnatomy2D
matchAnatomy3D	matchAnatomy3D
matrixToVolumeList	matrixToVolumeList
mergePartitions	mergePartitions-methods
mergePartitions,ClusteredBrainVolume,numeric,matrix-method	mergePartitions-methods
MNI_SPACE_1MM	MNI_SPACE_1MM
NamedAxis-class	NamedAxis-class
names,BrainBucket-method	names-methods
names,BrainBucketSource-method	names-methods
ndim	ndim-methods
ndim,AxisSet-method	ndim-methods
ndim,BrainData-method	ndim-methods
ndim,BrainSpace-method	ndim-methods
neuroim	neuroim
NIfTIFileDescriptor-class	NIfTIFileDescriptor-class
NIfTIMetaInfo	NIfTIMetaInfo-class
NIfTIMetaInfo-class	FileMetaInfo-class
NIMLSurfaceDataMetaInfo	NIMLSurfaceDataMetaInfo
NIMLSurfaceDataMetaInfo-class	NIMLSurfaceDataMetaInfo-class
NIMLSurfaceFileDescriptor-class	NIMLSurfaceFileDescriptor-class
NullMetaInfo-class	NullMetaInfo-class
numClusters	numClusters-methods
numClusters,ClusteredBrainVolume-method	numClusters-methods
origin	origin-methods
origin,BrainData-method	origin-methods
origin,BrainSpace-method	origin-methods
overlay	overlay-methods
overlay,Layer,Layer-method	overlay-methods
partition	partition-methods
partition,ClusteredBrainVolume,numeric,matrix-method	partition-methods
permMat	permMat-methods
permMat,AxisSet2D-method	permMat-methods
pick	pick-methods
print	print-methods
print,AxisSet2D-method	print-AxisSet2D-method
print,AxisSet3D-method	print-AxisSet3D-method
print,NamedAxis-method	print-NamedAxis-method
RandomSearchlight	RandomSearchlight
readAFNIHeader	readAFNIHeader
readColumns	readColumns-methods
readColumns,ColumnReader,numeric-method	readColumns-methods
readElements	readElements-methods
readElements,BinaryReader,numeric-method	readElements-methods
readHeader	readHeader
readMetaInfo	readMetaInfo-methods
readMetaInfo,AFNIFileDescriptor-method	readMetaInfo-methods
readMetaInfo,FreesurferAsciiSurfaceFileDescriptor-method	readMetaInfo-methods
readMetaInfo,NIfTIFileDescriptor-method	readMetaInfo-methods
readMetaInfo,NIMLSurfaceFileDescriptor-method	readMetaInfo-methods
RegionCube	RegionCube
RegionSphere	RegionSphere
RegionSquare	RegionSquare
render	render-methods
render,BrainSlice,numeric,numeric,character-method	render-methods
renderSlice	renderSlice-methods
renderSlice,Layer,numeric,numeric,numeric,missing-method	renderSlice-methods
renderSlice,Overlay,numeric,numeric,numeric,missing-method	renderSlice-methods
ROIVolume	ROIVolume
ROIVolume-class	ROIVolume-class
scaleSeries	scaleSeries-methods
scaleSeries,BrainVector,logical,logical-method	scaleSeries-methods
scaleSeries,BrainVector,logical,missing-method	scaleSeries-methods
scaleSeries,BrainVector,missing,logical-method	scaleSeries-methods
scaleSeries,BrainVector,missing,missing-method	scaleSeries-methods
Searchlight	Searchlight
series	series-methods
series,BrainVector,matrix-method	series-methods
series,BrainVector,numeric-method	series-methods
series,SparseBrainVector,matrix-method	series-methods
series,SparseBrainVector,numeric-method	series-methods
seriesIter	seriesIter
seriesIter,BrainVector-method	seriesIter
seriesIter,SparseBrainVector-method	seriesIter
show,AxisSet1D-method	show-AxisSet1D-method
show,AxisSet2D-method	show-AxisSet2D-method
show,AxisSet3D-method	show-AxisSet3D-method
show,AxisSet4D-method	show-AxisSet4D-method
show,BaseMetaInfo-method	show-BaseMetaInfo-method
show,BrainSpace-method	show-BrainSpace-method
show,BrainVector-method	show-BrainVector-method
show,BrainVectorSource-method	show-BrainVectorSource-method
show,BrainVolume-method	show-BrainVolume-method
show,FileMetaInfo-method	show-FileMetaInfo-method
show,NamedAxis-method	show-NamedAxis-method
show,NullMetaInfo-method	show-NullMetaInfo-method
show,ROIVolume-method	show-ROIVolume-method
show,SparseBrainVector-method	show-SparseBrainVector-method
show,SurfaceDataMetaInfo-method	show-SurfaceDataMetaInfo-method
show,SurfaceGeometryMetaInfo-method	show-SurfaceGeometryMetaInfo-method
slice	slice-methods
slice,BrainVolume,numeric,numeric,character-method	slice-methods
sliceData	sliceData
space	space-methods
space,BrainData-method	space-methods
space,BrainSpace-method	space-methods
space,IndexLookupVolume-method	space-methods
spacing	spacing-methods
spacing,BrainData-method	spacing-methods
spacing,BrainSpace-method	spacing-methods
SparseBrainVector	SparseBrainVector-class
SparseBrainVector-class	SparseBrainVector-class
SparseBrainVectorSource	SparseBrainVectorSource-class
SparseBrainVectorSource-class	SparseBrainVectorSource-class
SparseBrainVolume	SparseBrainVolume-class
SparseBrainVolume-class	SparseBrainVolume-class
splitFill	splitFill-methods
splitFill,BrainVolume,factor,function-method	splitFill-methods
splitReduce	splitReduce-methods
splitReduce,BrainVector,factor,function-method	splitReduce-methods
splitReduce,BrainVector,factor,missing-method	splitReduce-methods
splitReduce,matrix,factor,function-method	splitReduce-methods
splitReduce,matrix,factor,missing-method	splitReduce-methods
splitReduce,matrix,integer,function-method	splitReduce-methods
splitReduce,matrix,integer,missing-method	splitReduce-methods
splitScale	splitScale-methods
splitScale,matrix,factor,logical,logical-method	splitScale-methods
splitScale,matrix,factor,missing,missing-method	splitScale-methods
stripExtension	stripExtension-methods
stripExtension,BrainFileDescriptor,character-method	stripExtension-methods
subVector	subVector-methods
subVector,DenseBrainVector,numeric-method	subVector-methods
subVector,SparseBrainVector,numeric-method	subVector-methods
SurfaceDataMetaInfo	SurfaceDataMetaInfo
SurfaceDataMetaInfo-class	SurfaceDataMetaInfo-class
SurfaceGeometryMetaInfo	SurfaceGeometryMetaInfo
SurfaceGeometryMetaInfo-class	SurfaceGeometryMetaInfo-class
takeSeries	takeSeries-methods
takeVolume	takeVolume-methods
takeVolume,BrainVector,numeric-method	takeVolume-methods
takeVolume,SparseBrainVector,numeric-method	takeVolume-methods
tesselate	tesselate-methods
tesselate,LogicalBrainVolume,numeric-method	tesselate-methods
trans	trans-methods
trans,BrainData-method	trans-methods
trans,BrainMetaInfo-method	trans-methods
trans,BrainSpace-method	trans-methods
trans,NIfTIMetaInfo-method	trans-methods
values	values-methods
values,ROIVolume-method	values-methods
voxels	voxels-methods
voxels,Kernel-method	voxels-methods
writeElements	writeElements-methods
writeElements,BinaryWriter,numeric-method	writeElements-methods
writeVector	writeVector-methods
writeVector,BrainVector,character,character,missing-method	writeVector-methods
writeVector,BrainVector,character,missing,character,ANY-method	writeVector-methods
writeVector,BrainVector,character,missing,character-method	writeVector-methods
writeVector,BrainVector,character,missing,missing-method	writeVector-methods
writeVolume	writeVolume-methods
writeVolume,BrainVolume,character,character,missing-method	writeVolume-methods
writeVolume,BrainVolume,character,missing,character-method	writeVolume-methods
writeVolume,BrainVolume,character,missing,missing-method	writeVolume-methods
writeVolume,ClusteredBrainVolume,character,missing,missing-method	writeVolume-methods
[,BrainBucket,index,missing,ANY-method	sub-BrainBucket-index-missing-ANY-method
[,ROIVolume,numeric,missing,ANY-method	sub-ROIVolume-numeric-missing-ANY-method
[,SparseBrainVector,missing,missing,ANY-method	sub-SparseBrainVector-missing-missing-ANY-method
[,SparseBrainVector,missing,numeric,ANY-method	sub-SparseBrainVector-missing-numeric-ANY-method
[,SparseBrainVector,numeric,missing,ANY-method	sub-SparseBrainVector-numeric-missing-ANY-method
[,SparseBrainVector,numeric,numeric,ANY-method	sub-SparseBrainVector-numeric-numeric-ANY-method
[,SparseBrainVolume,matrix,missing,ANY-method	sub-SparseBrainVolume-matrix-missing-ANY-method
[,SparseBrainVolume,missing,missing,ANY-method	sub-SparseBrainVolume-missing-missing-ANY-method
[,SparseBrainVolume,missing,numeric,ANY-method	sub-SparseBrainVolume-missing-numeric-ANY-method
[,SparseBrainVolume,numeric,missing,missing-method	sub-SparseBrainVolume-numeric-missing-missing-method
[,SparseBrainVolume,numeric,numeric,ANY-method	sub-SparseBrainVolume-numeric-numeric-ANY-method
[[,BrainBucket,index,missing-method	sub-sub-BrainBucket-index-missing-method
