API for neuroim
Data Structures and Handling for Neuroimaging Data

Global functions
+,Layer,Layer-method	Man page
+,Overlay,Layer-method	Man page
.BrainVectorFromMatrix	Source code
.checkDimensions	Source code
.concat4D	Man page Source code
.distance	Source code
.extract.array	Man page Source code
.getDataCode	Man page Source code
.getDataSize	Man page Source code
.getDataStorage	Man page Source code
.getEndian	Man page Source code
.getRStorage	Man page Source code
.gridToIndex	Man page Source code
.gridToIndex3D	Man page Source code
.indexToGrid	Man page Source code
.isExtension	Man page Source code
.makeCubicGrid	Source code
.makeSphericalGrid	Source code
.makeSquareGrid	Source code
.matrixToQuatern	Man page Source code
.nearestAnatomy	Source code
.niftiExt	Man page Source code
.pruneCoords	Source code
.quaternToMatrix	Source code
.readMetaInfo	Source code
.resample	Source code
AFNIFileDescriptor-class	Man page
AFNIMetaInfo	Man page Source code
AFNIMetaInfo-class	Man page
AxisSet-class	Man page
AxisSet1D	Source code
AxisSet1D-class	Man page
AxisSet2D	Source code
AxisSet2D-class	Man page
AxisSet3D	Source code
AxisSet3D-class	Man page
AxisSet4D-class	Man page
AxisSet5D-class	Man page
Base-class	Man page
BaseMetaInfo-class	Man page
BaseSource-class	Man page
BinaryReader	Man page Source code
BinaryReader-class	Man page
BinaryWriter	Man page Source code
BinaryWriter-class	Man page
BootstrapSearchlight	Man page Source code
BrainBucket	Man page Source code
BrainBucket-class	Man page
BrainBucketSource	Man page Source code
BrainBucketSource-class	Man page
BrainData-class	Man page
BrainFileDescriptor-class	Man page
BrainFileSource-class	Man page
BrainMetaInfo	Man page Source code
BrainMetaInfo-class	Man page
BrainSlice	Man page Source code
BrainSlice-class	Man page
BrainSource-class	Man page
BrainSpace	Man page Source code
BrainSpace-class	Man page
BrainSurface-class	Man page
BrainSurfaceSource	Man page Source code
BrainSurfaceSource-class	Man page
BrainSurfaceVector-class	Man page
BrainSurfaceVectorSource-class	Man page
BrainVector	Man page Source code
BrainVector-class	Man page
BrainVectorSource	Man page Source code
BrainVectorSource-class	Man page
BrainVolume	Man page Source code
BrainVolume-class	Man page
BrainVolumeSource	Man page Source code
BrainVolumeSource-class	Man page
ClusteredBrainVolume	Man page Source code
ClusteredBrainVolume-class	Man page
ColumnReader	Man page Source code
ColumnReader-class	Man page
DenseBrainVector	Man page Source code
DenseBrainVector-class	Man page
DenseBrainVolume	Man page Source code
DenseBrainVolume-class	Man page
FileMetaInfo-class	Man page
FreesurferAsciiSurfaceFileDescriptor-class	Man page
FreesurferSurfaceGeometryMetaInfo-class	Man page
IndexLookupVolume	Man page Source code
IndexLookupVolume-class	Man page
Kernel	Man page Source code
Kernel-class	Man page
Layer	Man page Source code
Layer-class	Man page
LogicalBrainVolume	Man page Source code
LogicalBrainVolume-class	Man page
MNI_SPACE_1MM	Man page
NIMLSurfaceDataMetaInfo	Man page Source code
NIMLSurfaceDataMetaInfo-class	Man page
NIMLSurfaceFileDescriptor-class	Man page
NIfTIFileDescriptor-class	Man page
NIfTIMetaInfo	Man page Source code
NIfTIMetaInfo-class	Man page
NamedAxis-class	Man page
NullMetaInfo-class	Man page
NullSource	Source code
ROIVolume	Man page Source code
ROIVolume-class	Man page
RandomSearchlight	Man page Source code
RegionCube	Man page Source code
RegionSphere	Man page
RegionSquare	Man page Source code
Searchlight	Man page Source code
SparseBrainVector	Man page Source code
SparseBrainVector-class	Man page
SparseBrainVectorSource	Man page Source code
SparseBrainVectorSource-class	Man page
SparseBrainVolume	Man page Source code
SparseBrainVolume-class	Man page
SurfaceDataMetaInfo	Man page Source code
SurfaceDataMetaInfo-class	Man page
SurfaceGeometryMetaInfo	Man page Source code
SurfaceGeometryMetaInfo-class	Man page
[,BrainBucket,index,missing,ANY-method	Man page
[,ROIVolume,numeric,missing,ANY-method	Man page
[,SparseBrainVector,missing,missing,ANY-method	Man page
[,SparseBrainVector,missing,numeric,ANY-method	Man page
[,SparseBrainVector,numeric,missing,ANY-method	Man page
[,SparseBrainVector,numeric,numeric,ANY-method	Man page
[,SparseBrainVolume,matrix,missing,ANY-method	Man page
[,SparseBrainVolume,missing,missing,ANY-method	Man page
[,SparseBrainVolume,missing,numeric,ANY-method	Man page
[,SparseBrainVolume,numeric,missing,missing-method	Man page
[,SparseBrainVolume,numeric,numeric,ANY-method	Man page
[[,BrainBucket,index,missing-method	Man page
addDim	Man page
addDim,BrainSpace,numeric-method	Man page
as	Man page
as.array,BrainData-method	Man page
as.list,BrainVector-method	Man page
as.list,SparseBrainVector-method	Man page
as.logical,BrainVolume-method	Man page
as.mask	Man page
as.mask,BrainVolume,missing-method	Man page
as.mask,BrainVolume,numeric-method	Man page
as.matrix,BrainData-method	Man page
as.matrix,DenseBrainVector-method	Man page
as.matrix,SparseBrainVector-method	Man page
as.nifti.header	Source code
as.numeric,SparseBrainVolume-method	Man page
as.raster,Layer-method	Man page
as.sparse	Man page
as.sparse,DenseBrainVector,LogicalBrainVolume-method	Man page
as.sparse,DenseBrainVector,numeric-method	Man page
as.sparse,DenseBrainVolume,LogicalBrainVolume-method	Man page
as.sparse,DenseBrainVolume,numeric-method	Man page
as.vector,BrainData-method	Man page
axes	Man page
axes,BrainData-method	Man page
axes,BrainSpace-method	Man page
axisToIndex	Man page
axisToIndex,BrainSpace,numeric,numeric-method	Man page
bounds	Man page
bounds,BrainData-method	Man page
bounds,BrainSpace-method	Man page
checkDim	Source code
close,BinaryReader-method	Man page
close,BinaryWriter-method	Man page
clusterCenters	Man page
clusterCenters,ClusteredBrainVolume,matrix,missing-method	Man page
concat	Man page
concat,BrainVector,BrainVector-method	Man page
concat,BrainVector,BrainVolume-method	Man page
concat,BrainVolume,BrainVector-method	Man page
concat,DenseBrainVolume,DenseBrainVolume-method	Man page
concat,SparseBrainVector,SparseBrainVector-method	Man page
connComp	Man page
connComp,BrainVolume-method	Man page
connComp3D	Man page Source code
coordToGrid	Man page
coordToGrid,BrainSpace,matrix-method	Man page
coordToGrid,BrainSpace,numeric-method	Man page
coordToGrid,BrainVolume,matrix-method	Man page
coordToIndex	Man page
coordToIndex,BrainSpace,matrix-method	Man page
coordToIndex,BrainSpace,numeric-method	Man page
coordToIndex,BrainVolume,matrix-method	Man page
coords	Man page
coords,IndexLookupVolume-method	Man page
coords,ROIVolume-method	Man page
coords,SparseBrainVector-method	Man page
createNIfTIHeader	Source code
dataFile	Man page
dataFile,BrainFileDescriptor,character-method	Man page
dataFileMatches	Man page
dataFileMatches,BrainFileDescriptor,character-method	Man page
dataReader	Man page
dataReader,AFNIMetaInfo-method	Man page
dataReader,NIMLSurfaceDataMetaInfo-method	Man page
dataReader,NIfTIMetaInfo-method	Man page
dim,BrainData-method	Man page
dim,BrainSpace-method	Man page
dim,FileMetaInfo-method	Man page
dropDim	Man page
dropDim,AxisSet2D,missing-method	Man page
dropDim,AxisSet2D,numeric-method	Man page
dropDim,AxisSet3D,missing-method	Man page
dropDim,AxisSet3D,numeric-method	Man page
dropDim,BrainSpace,missing-method	Man page
dropDim,BrainSpace,numeric-method	Man page
eachSeries	Man page
eachSeries,BrainVector,function,missing-method	Man page
eachSeries,SparseBrainVector,function,logical-method	Man page
eachSlice	Man page
eachSlice,BrainVolume,function,logical-method	Man page
eachSlice,BrainVolume,function,missing-method	Man page
eachVolume	Man page
eachVolume,BrainBucket,function,logical,ANY-method	Man page
eachVolume,BrainBucket,function,missing,missing-method	Man page
eachVolume,BrainVector,function,logical,ANY-method	Man page
eachVolume,BrainVector,function,missing,BrainVolume-method	Man page
eachVolume,BrainVector,function,missing,missing-method	Man page
eachVolume,SparseBrainVector,function,logical,missing-method	Man page
eachVolume,SparseBrainVector,function,missing,LogicalBrainVolume	Man page
eachVolume,SparseBrainVector,function,missing,missing-method	Man page
fileMatches	Man page
fileMatches,BrainFileDescriptor,character-method	Man page
fill	Man page
fill,BrainVolume,list-method	Man page
fill,BrainVolume,matrix-method	Man page
findDescriptor	Source code
gridToCoord	Man page
gridToCoord,BrainSpace,matrix-method	Man page
gridToCoord,BrainVolume,matrix-method	Man page
gridToIndex	Man page
gridToIndex,BrainSlice,matrix-method	Man page
gridToIndex,BrainSpace,matrix-method	Man page
gridToIndex,BrainSpace,numeric-method	Man page
gridToIndex,BrainVolume,matrix-method	Man page
gridToIndex,BrainVolume,numeric-method	Man page
gridToIndex3DCpp	Source code
headerFile	Man page
headerFile,BrainFileDescriptor,character-method	Man page
headerFileMatches	Man page
headerFileMatches,BrainFileDescriptor,character-method	Man page
image,BrainVolume-method	Man page
image,Layer-method	Man page
image,Overlay-method	Man page
imageGrid	Man page Source code
indexToCoord	Man page
indexToCoord,BrainSpace,index-method	Man page
indexToCoord,BrainVolume,index-method	Man page
indexToGrid	Man page
indexToGrid,BrainSlice,index-method	Man page
indexToGrid,BrainSpace,index-method	Man page
indexToGrid,BrainVector,index-method	Man page
indexToGrid,BrainVolume,index-method	Man page
indexToGridCpp	Source code
indices	Man page
indices,IndexLookupVolume-method	Man page
indices,ROIVolume-method	Man page
indices,SparseBrainVector-method	Man page
inverseTrans	Man page
inverseTrans,BrainData-method	Man page
inverseTrans,BrainSpace-method	Man page
length,BrainVector-method	Man page
length,ROIVolume-method	Man page
loadBucket	Man page Source code
loadData	Man page
loadData,BrainBucketSource-method	Man page
loadData,BrainSurfaceSource-method	Man page
loadData,BrainVectorSource-method	Man page
loadData,BrainVolumeSource-method	Man page
loadData,SparseBrainVectorSource-method	Man page
loadFSSurface	Man page Source code
loadSurface	Man page Source code
loadVector	Man page Source code
loadVolume	Man page Source code
loadVolumeList	Man page Source code
lookup	Man page
lookup,IndexLookupVolume,numeric-method	Man page
lookup,SparseBrainVector,numeric-method	Man page
makeVector	Man page Source code
makeVolume	Man page Source code
map	Man page
map,BrainVolume,Kernel-method	Man page
mapToColors	Man page Source code
matchAnatomy2D	Man page Source code
matchAnatomy3D	Man page Source code
matchAxis	Source code
matrixToVolumeList	Man page Source code
mergePartitions	Man page
mergePartitions,ClusteredBrainVolume,numeric,matrix-method	Man page
names,BrainBucket-method	Man page
names,BrainBucketSource-method	Man page
ndim	Man page
ndim,AxisSet-method	Man page
ndim,BrainData-method	Man page
ndim,BrainSpace-method	Man page
neuroim	Man page
neuroim-package	Man page
niftiDim	Source code
numClusters	Man page
numClusters,ClusteredBrainVolume-method	Man page
origin	Man page
origin,BrainData-method	Man page
origin,BrainSpace-method	Man page
overlay	Man page
overlay,Layer,Layer-method	Man page
parseElement	Source code
parseFloatAttribute	Source code
parseIntAttribute	Source code
parseStringAttribute	Source code
parse_niml_element	Source code
parse_niml_file	Source code
parse_niml_header	Source code
parse_niml_next	Source code
partition	Man page
partition,ClusteredBrainVolume,numeric,matrix-method	Man page
permMat	Man page
permMat,AxisSet2D-method	Man page
pick	Man page
print	Man page
print,AxisSet2D-method	Man page
print,AxisSet3D-method	Man page
print,NamedAxis-method	Man page
readAFNIHeader	Man page Source code
readColumns	Man page
readColumns,ColumnReader,numeric-method	Man page
readElements	Man page
readElements,BinaryReader,numeric-method	Man page
readFreesurferAsciiGeometry	Source code
readFreesurferAsciiHeader	Source code
readHeader	Man page Source code
readMetaInfo	Man page
readMetaInfo,AFNIFileDescriptor-method	Man page
readMetaInfo,FreesurferAsciiSurfaceFileDescriptor-method	Man page
readMetaInfo,NIMLSurfaceFileDescriptor-method	Man page
readMetaInfo,NIfTIFileDescriptor-method	Man page
readNIMLSurfaceHeader	Source code
readNIfTIHeader	Source code
read_niml_binary	Source code
render	Man page
render,BrainSlice,numeric,numeric,character-method	Man page
renderSlice	Man page
renderSlice,Layer,numeric,numeric,numeric,missing-method	Man page
renderSlice,Overlay,numeric,numeric,numeric,missing-method	Man page
roxygen	Source code
scaleSeries	Man page
scaleSeries,BrainVector,logical,logical-method	Man page
scaleSeries,BrainVector,logical,missing-method	Man page
scaleSeries,BrainVector,missing,logical-method	Man page
scaleSeries,BrainVector,missing,missing-method	Man page
series	Man page
series,BrainVector,matrix-method	Man page
series,BrainVector,numeric-method	Man page
series,SparseBrainVector,matrix-method	Man page
series,SparseBrainVector,numeric-method	Man page
seriesIter	Man page
seriesIter,BrainVector-method	Man page
seriesIter,SparseBrainVector-method	Man page
show,AxisSet1D-method	Man page
show,AxisSet2D-method	Man page
show,AxisSet3D-method	Man page
show,AxisSet4D-method	Man page
show,BaseMetaInfo-method	Man page
show,BrainSpace-method	Man page
show,BrainVector-method	Man page
show,BrainVectorSource-method	Man page
show,BrainVolume-method	Man page
show,FileMetaInfo-method	Man page
show,NamedAxis-method	Man page
show,NullMetaInfo-method	Man page
show,ROIVolume-method	Man page
show,SparseBrainVector-method	Man page
show,SurfaceDataMetaInfo-method	Man page
show,SurfaceGeometryMetaInfo-method	Man page
slice	Man page
slice,BrainVolume,numeric,numeric,character-method	Man page
sliceData	Man page Source code
space	Man page
space,BrainData-method	Man page
space,BrainSpace-method	Man page
space,IndexLookupVolume-method	Man page
spacing	Man page
spacing,BrainData-method	Man page
spacing,BrainSpace-method	Man page
splitFill	Man page
splitFill,BrainVolume,factor,function-method	Man page
splitReduce	Man page
splitReduce,BrainVector,factor,function-method	Man page
splitReduce,BrainVector,factor,missing-method	Man page
splitReduce,matrix,factor,function-method	Man page
splitReduce,matrix,factor,missing-method	Man page
splitReduce,matrix,integer,function-method	Man page
splitReduce,matrix,integer,missing-method	Man page
splitScale	Man page
splitScale,matrix,factor,logical,logical-method	Man page
splitScale,matrix,factor,missing,missing-method	Man page
stripExtension	Man page
stripExtension,BrainFileDescriptor,character-method	Man page
subVector	Man page
subVector,DenseBrainVector,numeric-method	Man page
subVector,SparseBrainVector,numeric-method	Man page
takeSeries	Man page
takeVolume	Man page
takeVolume,BrainVector,numeric-method	Man page
takeVolume,SparseBrainVector,numeric-method	Man page
tesselate	Man page
tesselate,LogicalBrainVolume,numeric-method	Man page
trans	Man page
trans,BrainData-method	Man page
trans,BrainMetaInfo-method	Man page
trans,BrainSpace-method	Man page
trans,NIfTIMetaInfo-method	Man page
values	Man page
values,ROIVolume-method	Man page
voxels	Man page
voxels,Kernel-method	Man page
write.nifti.vector	Source code
write.nifti.volume	Source code
writeElements	Man page
writeElements,BinaryWriter,numeric-method	Man page
writeNIfTIHeader	Source code
writeVector	Man page
writeVector,BrainVector,character,character,missing-method	Man page
writeVector,BrainVector,character,missing,character,ANY-method	Man page
writeVector,BrainVector,character,missing,character-method	Man page
writeVector,BrainVector,character,missing,missing-method	Man page
writeVolume	Man page
writeVolume,BrainVolume,character,character,missing-method	Man page
writeVolume,BrainVolume,character,missing,character-method	Man page
writeVolume,BrainVolume,character,missing,missing-method	Man page
writeVolume,ClusteredBrainVolume,character,missing,missing-metho	Man page