A package for reading, manipulating and visualising magnetic resonance images

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Documentation for package ‘tractor.base’ version 2.3.0

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angleBetweenVectors Miscellaneous vector functions
as.array.MriImage Class '"MriImage"'
as.array.SparseArray Class '"SparseArray"'
copyImageFiles Working with MRI images stored in NIfTI, Analyze and MGH formats
createCombinedGraphics Visualise MriImage objects
createContactSheetGraphic Visualise MriImage objects
createNeighbourhoodInfo Class representing a cuboidal neighbourhood in an image
createProjectionGraphic Visualise MriImage objects
createSliceGraphic Visualise MriImage objects
defaultInfoPanel A simple interactive viewer for MriImage objects
deserialiseReferenceObject Reference object serialisation and deserialisation
DicomMetadata Class '"DicomMetadata"'
DicomMetadata-class Class '"DicomMetadata"'
dictionary DICOM tag dictionary
dim.MriImage Class '"MriImage"'
dim.SparseArray Class '"SparseArray"'
ensureFileSuffix Functions for file name and path manipulation
equivalent Test two numeric vectors for equivalence
execute Find or run an external executable file
expandFileName Functions for file name and path manipulation
extractDataFromMriImage Functions for creating MriImage objects from data
generateImageDataForShape Functions for creating MriImage objects from data
getColourScale Functions for working with colour scales or palettes
getDataTypeByNiftiCode MriImage data types
getNiftiCodeForDataType MriImage data types
identifyImageFileNames Working with MRI images stored in NIfTI, Analyze and MGH formats
imageFileExists Working with MRI images stored in NIfTI, Analyze and MGH formats
implode Create a character string by concatenating the elements of a vector
interpolatePalette Functions for working with colour scales or palettes
is.nilObject The nil object
isDeserialisable Reference object serialisation and deserialisation
locateExecutable Find or run an external executable file
Math.MriImage Class '"MriImage"'
MriImage Class '"MriImage"'
MriImage-class Class '"MriImage"'
MriImageMetadata Class '"MriImageMetadata"'
MriImageMetadata-class Class '"MriImageMetadata"'
neighbourhoodInfo Class representing a cuboidal neighbourhood in an image
newDicomMetadataFromFile Read a DICOM file into a DicomMetadata object
newMriImageAsShapeOverlay Functions for creating MriImage objects from data
newMriImageByExtraction Functions for creating MriImage objects from data
newMriImageByMasking Functions for creating MriImage objects from data
newMriImageByThresholding Functions for creating MriImage objects from data
newMriImageByTrimming Functions for creating MriImage objects from data
newMriImageFromDicom Functions for reading images from DICOM files
newMriImageFromDicomDirectory Functions for reading images from DICOM files
newMriImageFromDicomMetadata Functions for reading images from DICOM files
newMriImageFromFile Working with MRI images stored in NIfTI, Analyze and MGH formats
newMriImageFromTemplate Functions for creating MriImage objects from data
newMriImageMetadataFromDicom Functions for reading images from DICOM files
newMriImageMetadataFromDicomMetadata Functions for reading images from DICOM files
newMriImageMetadataFromFile Working with MRI images stored in NIfTI, Analyze and MGH formats
newMriImageMetadataFromTemplate Duplicates an MriImageMetadata object, possibly with modification
newMriImageWithBinaryFunction Functions for creating MriImage objects from data
newMriImageWithData Functions for creating MriImage objects from data
newMriImageWithDataRepresentation Convert between image data storage conventions
newMriImageWithSimpleFunction Functions for creating MriImage objects from data
newSparseArrayWithData Create a SparseArray object
nilObject The nil object
Ops.MriImage Class '"MriImage"'
printLabelledValues Pretty print labelled information
promote Promote a vector to a single-column or single-row matrix
relativePath Functions for file name and path manipulation
removeImageFilesWithName Working with MRI images stored in NIfTI, Analyze and MGH formats
resolveVector Miscellaneous vector functions
SerialisableObject Class '"SerialisableObject"'
SerialisableObject-class Class '"SerialisableObject"'
sortDicomDirectory Sort a directory of DICOM files into series
SparseArray Class '"SparseArray"'
SparseArray-class Class '"SparseArray"'
SparseOrDenseArray Class '"SparseOrDenseArray"'
SparseOrDenseArray-class Class '"SparseOrDenseArray"'
Summary.MriImage Class '"MriImage"'
symlinkImageFiles Working with MRI images stored in NIfTI, Analyze and MGH formats
threadSafeTempFile Obtain thread-safe temporary file names
vectorCrossProduct Miscellaneous vector functions
vectorLength Miscellaneous vector functions
viewImages A simple interactive viewer for MriImage objects
writeMriImageToFile Working with MRI images stored in NIfTI, Analyze and MGH formats
[-method Class '"MriImage"'
[-method Class '"SparseArray"'
[<--method Class '"MriImage"'
[<--method Class '"SparseArray"'