ciftiTools {ciftiTools}

ciftiTools: Tools for Reading and Visualizing CIFTI Brain Files

Description

Here are groups of commonly-used functions in ciftiTools:

Details

Functions for reading in CIFTI or GIFTI data:

read_xifti:

Read in a CIFTI file as a "xifti"

read_xifti2:

Read in GIFTI files as a "xifti"

as.xifti:

Combine numeric data to form a "xifti"

read_surf:

Read in a surface GIFTI file as a "surf"

info_cifti:

Read the metadata in a CIFTI file

load_surf:

Read in a surface included in ciftiTools

load_parc:

Read in a parcellation included in ciftiTools

Functions for writing CIFTI or GIFTI data:

write_cifti:

Write a "xifti" to a CIFTI file

write_xifti2:

Write a "xifti" to GIFTI and NIFTI files

write_metric_gifti:

Write a numeric data matrix to a metric GIFTI file

write_surf_gifti:

Write a "surf" to a surface GIFTI file

write_subcort_nifti:

Write subcortical data to NIFTI files

separate_cifti:

Separate a CIFTI file into GIFTI and NIFTI files

Functions for manipulating "xifti"s:

apply_xifti:

Apply a function along the rows or columns of the "xifti" data matrix

combine_xifti:

Combine multiple "xifti"s with non-overlapping brain structures

convert_xifti:

Convert the intent of a "xifti"

merge_xifti:

Concatenate data matrices from multiple "xifti"s

newdata_xifti:

Replace the data matrix in a "xifti"

remove_xifti:

Remove a brain structure or surface from a "xifti"

select_xifti:

Select data matrix columns of a "xifti"

transform_xifti:

Apply a univariate transformation to a "xifti" or pair of "xifti"s

add_surf:

Add surfaces to a "xifti"

move_from_mwall:

Move medial wall vertices back into the "xifti" data matrix

move_to_mwall:

Move rows with a certain value into the "xifti" medial wall mask

S3 methods for "xifti"s:

summary and print:

Summarize the contents.

as.matrix:

Convert data to a locations by measurements numeric matrix.

dim:

Obtain number of locations and number of measurements.

plot:

Visualize the cortical surface and/or subcortical data.

+, -, *, /, ^, %%, %/%:

Operation between a "xifti" and a scalar, or between two "xifti"s.

abs, ceiling, exp, floor, log, round, sign, and sqrt:

Univariate transformation of "xifti" data.

Functions for working with surfaces:

read_surf:

Read in a surface GIFTI file as a "surf"

is.surf:

Verify a "surf"

write_surf_gifti:

Write a "surf" to a surface GIFTI file

view_surf:

Visualize a "surf"

resample_surf:

Resample a "surf"

rotate_surf:

Rotate the geometry of a "surf"

Author(s)

Maintainer: Amanda Mejia [e-mail]

Authors:

• Damon Pham [e-mail] (ORCID)

Other contributors:

• John Muschelli [e-mail] (ORCID) [contributor]

See Also

Useful links:

• https://github.com/mandymejia/ciftiTools

• Report bugs at https://github.com/mandymejia/ciftiTools/issues