Tools for Reading and Visualizing CIFTI Brain Files

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Documentation for package ‘ciftiTools’ version 0.2.2

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A C D E F G I L M N P R S T U V W misc

-- A --

abs.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
add_surf Add surface(s) to a '"xifti"' object
as.cifti Assemble a '"xifti"' object from data
as.xifti Assemble a '"xifti"' object from data
as_cifti Assemble a '"xifti"' object from data
as_xifti Assemble a '"xifti"' object from data

-- C --

ceiling.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
ciftiTools ciftiTools: Tools for Reading and Visualizing CIFTI Brain Files
ciftiTools.getOption Get 'ciftiTools' option
ciftiTools.listOptions List 'ciftiTools' options
ciftiTools.setOption Set 'ciftiTools' option
concat_xifti Concatenate '"xifti"' objects
convert_to_dlabel Convert the intent of a '"xifti"' to ".dlabel"
convert_to_dscalar Convert the intent of a '"xifti"' to ".dscalar"

-- D --

demo_files Get example files

-- E --

exp.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
expand_color_pal Interpolates between entries in the input palette to make a larger palette with COLOR_RES entries.

-- F --

floor.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.

-- G --

get_wb_cmd_path Get the Connectome Workbench command path
gifti_to_surf Convert input to a '"surf"' object

-- I --

infoCIfTI Get CIFTI metadata
infocii Get CIFTI metadata
info_cifti Get CIFTI metadata
is.cifti Validate a '"xifti"' object
is.surf Validate a surface (vertices + faces)
is.xifti Validate a '"xifti"' object.
isCIfTI Validate a '"xifti"' object
is_cifti Validate a '"xifti"' object
is_xifti Validate a '"xifti"' object.

-- L --

log.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.

-- M --

make_color_pal Make a color palette.
make_surf Convert input to a '"surf"' object

-- N --

newdata_xifti Replace the data in a '"xifti"'

-- P --

parc_borders Parcellation borders
plot.surf S3 method: plot surface
plot.xifti S3 method: use 'view_xifti' to plot a '"xifti"' object
print.summary.surf Summarize cifti objects
print.summary.xifti Summarize cifti objects
print.surf Summarize cifti objects
print.xifti Summarize cifti objects

-- R --

readCIfTI Read a CIFTI file
readcii Read a CIFTI file
read_cifti Read a CIFTI file
read_xifti Read a CIFTI file
remove_xifti Remove '"xifti"' component
resampleCIfTI Resample CIFTI Data
resamplecii Resample CIFTI Data
resampleGIfTI Resample a GIFTI file (with its ROI)
resamplegii Resample a GIFTI file (with its ROI)
resample_cifti Resample CIFTI Data
resample_cifti_from_template Resample a CIFTI from a template
resample_gifti Resample a GIFTI file (with its ROI)
resample_surf Resample a '"surf"' object
resample_xifti Resample CIFTI Data
rotate_surf Rotate a '"surface"' object
round.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
ROY_BIG_BL "ROY_BIG_BL" color palette
run_wb_cmd Wrapper for Connectome Workbench Commands

-- S --

select_xifti Select columns of a '"xifti"' object
separateCIfTI Separate a CIFTI file
separatecii Separate a CIFTI file
separate_cifti Separate a CIFTI file
sign.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
smoothCIfTI Smooth a CIFTI
smoothcii Smooth a CIFTI
smooth_cifti Smooth a CIFTI
smooth_xifti Smooth a CIFTI
sqrt.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
substructure_table Substructure table
summary.surf Summarize cifti objects
summary.xifti Summarize cifti objects
supported_intents The NIFTI intents supported by 'ciftiTools'
sys_path Format a path for 'system'.

-- T --

transform_xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.

-- U --

unmask_cortex Unmask cortex
unmask_vol Undo a volumetric mask
use_color_pal Use a color palette

-- V --

viewCIfTI View a '"xifti"' object
viewCIfTI_surface View cortical surface data
viewCIfTI_volume View subcortex
viewcii View a '"xifti"' object
viewcii_surface View cortical surface data
viewcii_volume View subcortex
view_cifti View a '"xifti"' object
view_cifti_surface View cortical surface data
view_cifti_volume View subcortex
view_surf View '"surf"' object(s)
view_xifti View a '"xifti"' object
view_xifti_surface View cortical surface data
view_xifti_volume View subcortex

-- W --

writeCIfTI Write a CIFTI file from a '"xifti"' object.
writecii Write a CIFTI file from a '"xifti"' object.
write_cifti Write a CIFTI file from a '"xifti"' object.
write_metric_gifti Write CIFTI cortex data to GIFTI
write_subcort_nifti Write subcortical data to NIFTI files
write_surf_gifti Write CIFTI surface data to GIFTI
write_xifti Write a CIFTI file from a '"xifti"' object.

-- misc --

%%.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
%/%.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
*.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
+.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
-.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
/.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.
^.xifti Apply a univariate transformation to a '"xifti"' or pair of '"xifti"'s.