readDicomDirectory {tractor.base}

Read a directory of DICOM files

Description

This function scans a directory for files in DICOM format, and converts them to a single Analyze/NIfTI-format image of the appropriate dimensionality.

Usage

readDicomDirectory(dicomDir, method = c("internal", "divest"),
  readDiffusionParams = FALSE, untileMosaics = TRUE, ...)

Arguments

dicomDir

Character vector of length one giving the name of a directory containing DICOM files.

method

Character string specifying whether to use the internal DICOM reading code or use the divest package.

readDiffusionParams

Logical value. Should diffusion MRI parameters (b-values and gradient directions) be retrieved from the files if possible?

untileMosaics

Logical value. Should Siemens mosaic images be converted into 3D volumes? This may occasionally be performed in error, which can be prevented by setting this value to FALSE.

...

Additional arguments to readDicom, if the divest method is used.

Value

A list containing elements

image

An MriImage object.

bValues

Diffusion b-values, if requested. Will be NA if the information could not be found in files.

bVectors

Diffusion gradient vectors, if requested. Will be NA if the information could not be found in the files.

Author(s)

Jon Clayden

References

Please cite the following reference when using TractoR in your work:

J.D. Clayden, S. Muñoz Maniega, A.J. Storkey, M.D. King, M.E. Bastin & C.A. Clark (2011). TractoR: Magnetic resonance imaging and tractography with R. Journal of Statistical Software 44(8):1-18. doi:10.18637/jss.v044.i08.

See Also

DicomMetadata, MriImage, sortDicomDirectories.