tractor.base: Read, Manipulate and Visualise Magnetic Resonance Images
Version 3.0.7

Functions for working with magnetic resonance images. Analyze, NIfTI-1, NIfTI-2 and MGH format images can be read and written; DICOM files can only be read.

AuthorJon Clayden
Date of publication2016-11-07 21:07:48
MaintainerJon Clayden <code@clayden.org>
LicenseGPL-2
Version3.0.7
URL http://www.tractor-mri.org.uk
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("tractor.base")

Popular man pages

allEqual: Test whether all elements of a vector are equal
deduplicate: Concatenate and deduplicate vectors
DicomMetadata-class: The DicomMetadata class
files: Working with MRI images stored in NIfTI, Analyze and MGH...
MriImage-class: The MriImage class
nilObject: The nil object
sortDicomDirectories: Sort a directory of DICOM files into series
See all...

All man pages Function index File listing

Man pages

allEqual: Test whether all elements of a vector are equal
asMriImage: Creating MriImage objects from data
colourScales: Functions for working with colour scales or palettes
deduplicate: Concatenate and deduplicate vectors
DicomMetadata-class: The DicomMetadata class
emptyMatrix: The empty matrix
equivalent: Test two numeric vectors for equivalence
execute: Find or run an external executable file
files: Working with MRI images stored in NIfTI, Analyze and MGH...
implode: Create a character string by concatenating the elements of a...
index: Indexing methods
mergeMriImages: Merging MriImage objects
MriImage-class: The MriImage class
neighbourhoodInfo: Image neighbourhoods
newSparseArrayWithData: Create a SparseArray object
nilObject: The nil object
paths: Functions for file name and path manipulation
pluralise: Number agreement with a vector
printLabelledValues: Pretty print labelled information
promote: Promote a vector to a single-column or single-row matrix
readDicomDirectory: Read a directory of DICOM files
readDicomFile: Read a DICOM file into a DicomMetadata object
SerialisableObject-class: The SerialisableObject class
serialisation: Reference object serialisation and deserialisation
sortDicomDirectories: Sort a directory of DICOM files into series
SparseArray-class: The SparseArray class
threadSafeTempFile: Obtain thread-safe temporary file names
tractor.base-deprecated: Deprecated functions
vector: Miscellaneous vector functions
viewer: A simple interactive viewer for MriImage objects
visualisation: Visualise MriImage objects

Functions

DicomMetadata Man page
DicomMetadata-class Man page
Math.MriImage Source code
MriImage Man page
MriImage-class Man page
Ops.MriImage Source code
SerialisableObject Man page
SerialisableObject-class Man page
SparseArray Man page
SparseArray-class Man page
Summary.MriImage Source code
[,MriImage,ANY,ANY-method Man page
[,MriImage,ANY,missing-method Man page
[,MriImage,missing,ANY-method Man page
[,MriImage,missing,missing-method Man page
[,SparseArray,ANY,ANY-method Man page
[<-,MriImage,ANY,ANY-method Man page
[<-,MriImage,ANY,missing-method Man page
[<-,MriImage,missing,ANY-method Man page
[<-,MriImage,missing,missing-method Man page
[<-,SparseArray,ANY,ANY-method Man page
allEqual Man page Source code
angleBetweenVectors Man page Source code
aperm.SparseArray Source code
as.array.MriImage Source code
as.array.SparseArray Source code
as.vector.SparseArray Source code
asMriImage Man page Source code
buildStepVectors Source code
chooseDataTypeForImage Source code
colourMap Source code
compositeImages Source code
copyImageFiles Man page Source code
createContactSheetGraphic Man page Source code
createNeighbourhoodInfo Man page Source code
createProjectionGraphic Man page Source code
createSliceGraphic Man page Source code
deduplicate Man page Source code
defaultInfoPanel Man page Source code
deserialiseReferenceObject Man page Source code
dim.MriImage Source code
dim.SparseArray Source code
displayGraphic Source code
dropCommonPrefix Source code
emptyMatrix Man page Source code
ensureFileSuffix Man page Source code
equivalent Man page Source code
evaluateIndices Source code
execute Man page Source code
expandFileName Man page Source code
extractDataFromMriImage Man page Source code
extractMriImage Man page Source code
extractRotationMatrixFromXform Source code
getColourScale Man page Source code
getDescriptionForDicomTag Source code
getParametersForFileType Source code
hasNiftiMagicString Source code
identifyImageFileNames Man page Source code
imageFileExists Man page Source code
implode Man page Source code
interpolatePalette Man page Source code
is.emptyMatrix Man page Source code
is.nilObject Man page Source code
isDeserialisable Man page Source code
locateExecutable Man page Source code
maskPixels Source code
matchPaths Man page Source code
matrixToVectorLocs Source code
maximumIntensityProjection Source code
mergeMriImages Man page Source code
neighbourhoodInfo Man page
newDicomMetadataFromFile Man page Source code
newMriImageByExtraction Man page Source code
newMriImageByMasking Man page Source code
newMriImageByReordering Man page Source code
newMriImageByThresholding Man page Source code
newMriImageByTrimming Man page Source code
newMriImageFromDicomDirectory Man page Source code
newMriImageFromFile Man page Source code
newMriImageWithBinaryFunction Man page Source code
newMriImageWithData Man page Source code
newMriImageWithSimpleFunction Man page Source code
newSparseArrayWithData Man page Source code
niftiDatatype Source code
nilObject Man page Source code
onLoad Source code
paths Man page
pluralise Man page Source code
print.DicomMetadata Source code
printLabelledValues Man page Source code
promote Man page Source code
quaternionToXform Source code
readAnalyze Source code
readDicomDirectory Man page Source code
readDicomFile Man page Source code
readDiffusionParametersFromMetadata Source code
readImageFile Man page Source code
readImageParametersFromMetadata Source code
readMgh Source code
readNifti Source code
registerDeserialiser Man page Source code
registerPathHandler Man page Source code
relativePath Man page Source code
removeImageFiles Man page Source code
removeImageFilesWithName Man page Source code
reorderMriImage Man page Source code
resolveVector Man page Source code
serialisation Man page
serialiseReferenceObject Man page Source code
sortDicomDirectories Man page Source code
stripNul Source code
symlinkImageFiles Man page Source code
threadSafeTempFile Man page Source code
timeSeriesPanel Man page Source code
trimMriImage Man page Source code
vectorCrossProduct Man page Source code
vectorLength Man page Source code
vectorToMatrixLocs Source code
viewImages Man page Source code
visualisation Man page
warnIfIndexingUnreorderedImage Source code
writeAnalyze Source code
writeImageData Source code
writeImageFile Man page Source code
writeMgh Source code
writeMriImageToFile Man page Source code
writeNifti Source code
writePng Source code
xformToOrientation Source code
xformToQuaternion Source code

Files

inst
inst/CITATION
NAMESPACE
R
R/mgh.R
R/nifti.R
R/10_mri_image.R
R/15_dicom.R
R/files.R
R/sysdata.rda
R/analyze.R
R/dicom_dir.R
R/internal.R
R/deprecated.R
R/05_serialise.R
R/viz.R
R/neighbourhood.R
R/vector.R
R/xform.R
R/00_constants.R
R/misc.R
R/08_sparse.R
R/png.R
R/zzz.R
R/viewer.R
MD5
DESCRIPTION
man
man/serialisation.Rd
man/emptyMatrix.Rd
man/paths.Rd
man/SparseArray-class.Rd
man/execute.Rd
man/MriImage-class.Rd
man/nilObject.Rd
man/deduplicate.Rd
man/readDicomFile.Rd
man/visualisation.Rd
man/DicomMetadata-class.Rd
man/files.Rd
man/pluralise.Rd
man/index.Rd
man/printLabelledValues.Rd
man/newSparseArrayWithData.Rd
man/mergeMriImages.Rd
man/viewer.Rd
man/sortDicomDirectories.Rd
man/colourScales.Rd
man/readDicomDirectory.Rd
man/implode.Rd
man/promote.Rd
man/allEqual.Rd
man/neighbourhoodInfo.Rd
man/threadSafeTempFile.Rd
man/equivalent.Rd
man/vector.Rd
man/tractor.base-deprecated.Rd
man/SerialisableObject-class.Rd
man/asMriImage.Rd
tractor.base documentation built on May 19, 2017, 8:29 a.m.

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