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ciftiTools (version 0.9.0)

info_cifti: Get CIFTI metadata

Description

Get CIFTI metadata from the NIFTI header and XML using the Connectome Workbench command -nifti-information. The information is formatted as the meta component in a "xifti" object (see template_xifti), and includes:

  1. medial wall masks for the left and right cortex

  2. the subcortical labels (ordered spatially)

  3. the subcortical mask

  4. other NIFTI intent-specific metadata

Usage

info_cifti(cifti_fname)
infoCIfTI(cifti_fname)
infocii(cifti_fname)

Arguments

cifti_fname

File path to a CIFTI file (ending in ".d*.nii").

Value

The metadata component of a "xifti" for the input CIFTI file

Connectome Workbench

This function interfaces with the "-nifti-information" Workbench command.

Label Levels

xifti$meta$subcort$labels is a factor with the following levels:

  1. Cortex-L

  2. Cortex-R

  3. Accumbens-L

  4. Accumbens-R

  5. Amygdala-L

  6. Amygdala-R

  7. Brain Stem

  8. Caudate-L

  9. Caudate-R

  10. Cerebellum-L

  11. Cerebellum-R

  12. Diencephalon-L

  13. Diencephalon-R

  14. Hippocampus-L

  15. Hippocampus-R

  16. Pallidum-L

  17. Pallidum-R

  18. Putamen-L

  19. Putamen-R

  20. Thalamus-L

  21. Thalamus-R

These correspond to the same structures as given by ft_read_cifti in the cifti-matlab MATLAB toolbox. Note that the first two levels (left and right cortex) are not used.

Details

Additional metadata depends on the type of CIFTI file:

  1. "dtseries"

    1. time_start: Start time

    2. time_step: The TR

    3. time_unit: Unit of time

  2. "dscalar"

    1. names: Name of each data column

  3. "dlabels"

    1. names:( Names of each data column.)

    2. labels:( List of \(L x 5\) data.frames. Row names are the label names. Column names are Key, Red, Green, Blue, and Alpha. List entry names are the names of each data column.)

See Also

Other functions for reading in CIFTI or GIFTI data: as.xifti(), load_parc(), load_surf(), read_cifti(), read_surf(), read_xifti2()