File IO for Intracranial Electroencephalography

Documentation for package ‘ieegio’ version 0.1.2

Help Pages

-- A --

as_edf_channel	Write to 'EDF' format
as_ieegio_colormap	Convert to 'ieegio_colormap'
as_ieegio_colormap.threeBrain_colormap	Convert to 'ieegio_colormap'
as_ieegio_colortable	Convert to ieegio color table
as_ieegio_lookup	Convert to ieegio lookup table
as_ieegio_roi	Convert objects to "ieegio" region of interest
as_ieegio_roi.ants.core.ants_image.ANTsImage	Convert objects to "ieegio" region of interest
as_ieegio_roi.array	Convert objects to "ieegio" region of interest
as_ieegio_roi.character	Convert objects to "ieegio" region of interest
as_ieegio_roi.data.frame	Convert objects to "ieegio" region of interest
as_ieegio_roi.default	Convert objects to "ieegio" region of interest
as_ieegio_roi.fs.surface	Convert objects to "ieegio" region of interest
as_ieegio_roi.ieegio_roi	Convert objects to "ieegio" region of interest
as_ieegio_roi.ieegio_streamlines	Convert objects to "ieegio" region of interest
as_ieegio_roi.ieegio_surface	Convert objects to "ieegio" region of interest
as_ieegio_roi.ieegio_volume	Convert objects to "ieegio" region of interest
as_ieegio_roi.integer	Convert objects to "ieegio" region of interest
as_ieegio_roi.list	Convert objects to "ieegio" region of interest
as_ieegio_roi.matrix	Convert objects to "ieegio" region of interest
as_ieegio_roi.mesh3d	Convert objects to "ieegio" region of interest
as_ieegio_roi.nifti	Convert objects to "ieegio" region of interest
as_ieegio_roi.niftiImage	Convert objects to "ieegio" region of interest
as_ieegio_roi.numeric	Convert objects to "ieegio" region of interest
as_ieegio_streamlines	Read and write streamlines
as_ieegio_streamlines.character	Read and write streamlines
as_ieegio_streamlines.default	Read and write streamlines
as_ieegio_surface	Convert other surface formats to 'ieegio' surface
as_ieegio_surface.character	Convert other surface formats to 'ieegio' surface
as_ieegio_surface.default	Convert other surface formats to 'ieegio' surface
as_ieegio_surface.fs.surface	Convert other surface formats to 'ieegio' surface
as_ieegio_surface.ieegio_niml	Convert other surface formats to 'ieegio' surface
as_ieegio_surface.ieegio_surface	Convert other surface formats to 'ieegio' surface
as_ieegio_surface.mesh3d	Convert other surface formats to 'ieegio' surface
as_ieegio_transform	Convert to ieegio transform
as_ieegio_transform.array	Convert to ieegio transform
as_ieegio_transform.character	Convert to ieegio transform
as_ieegio_transform.ieegio_transforms	Convert to ieegio transform
as_ieegio_transform.list	Convert to ieegio transform
as_ieegio_transform.matrix	Convert to ieegio transform
as_ieegio_transform.NULL	Convert to ieegio transform
as_ieegio_volume	Convert objects to "ieegio" image volumes
as_ieegio_volume.ants.core.ants_image.ANTsImage	Convert objects to "ieegio" image volumes
as_ieegio_volume.array	Convert objects to "ieegio" image volumes
as_ieegio_volume.character	Convert objects to "ieegio" image volumes
as_ieegio_volume.ieegio_volume	Convert objects to "ieegio" image volumes
as_ieegio_volume.nifti	Convert objects to "ieegio" image volumes
as_ieegio_volume.niftiImage	Convert objects to "ieegio" image volumes
as_nifti_header	Internal method to extract header information from a 'NIfTI' file

-- B --

burn_curve	Burn a curve trajectory into a volume
burn_volume	Burn image at given positions

-- C --

calculate_color	Map data values or atlas keys to hex colors
colorspace_from_rgb	Color space conversion helpers
colorspace_to_rgb	Color space conversion helpers
convert-fst	Convert 'FST' files to other formats
convert_fst_to_csv	Convert 'FST' files to other formats
convert_fst_to_hdf5	Convert 'FST' files to other formats

-- D --

detect_roi_overlap

Detect whether two regions of interest overlap

-- I --

ieegio_sample_data	Download sample files
imaging-streamlines	Read and write streamlines
imaging-surface	Read and write surface files
imaging-volume	Read and write volume data
install_pynwb	Install "NWB" via "pynwb"
io-trk	Read or write "TCK" streamlines
io-tt	Read "TT" streamline file
io-vtk-polys	Read or write surface mesh data in "VTK" format
io-vtk-streamlines	Read or write streamline data in "VTK" format
io_h5_names	Check whether a 'HDF5' file can be opened for read/write
io_h5_valid	Check whether a 'HDF5' file can be opened for read/write
io_read_ants_transform	Read 'ANTs' transform file
io_read_flirt_transform	Read FSL FLIRT transformation matrix
io_read_fs	Read and write surface files
io_read_fst	Low-level file read and write
io_read_fstarray_or_h5	Function try to load 'FST' arrays, if not found, read 'HDF5' arrays
io_read_gii	Read and write surface files
io_read_h5	Lazy Load 'HDF5' File
io_read_ini	Low-level file read and write
io_read_json	Low-level file read and write
io_read_mat	Low-level file read and write
io_read_mgz	Read and write volume data
io_read_nii	Read and write volume data
io_read_niml	Read an AFNI/SUMA NIML dataset
io_read_tck	Read or write "TCK" streamlines
io_read_trk	Read or write "TCK" streamlines
io_read_tt	Read "TT" streamline file
io_read_vtk_polys	Read or write surface mesh data in "VTK" format
io_read_vtk_streamlines	Read or write streamline data in "VTK" format
io_read_yaml	Low-level file read and write
io_write_fst	Low-level file read and write
io_write_gii	Read and write surface files
io_write_h5	Save objects to 'HDF5' file without trivial checks
io_write_json	Low-level file read and write
io_write_mat	Low-level file read and write
io_write_mgz	Read and write volume data
io_write_mgz.ants.core.ants_image.ANTsImage	Read and write volume data
io_write_mgz.array	Read and write volume data
io_write_mgz.ieegio_mgh	Read and write volume data
io_write_mgz.ieegio_volume	Read and write volume data
io_write_mgz.nifti	Read and write volume data
io_write_mgz.niftiImage	Read and write volume data
io_write_nii	Read and write volume data
io_write_nii.ants.core.ants_image.ANTsImage	Read and write volume data
io_write_nii.array	Read and write volume data
io_write_nii.ieegio_mgh	Read and write volume data
io_write_nii.ieegio_nifti	Read and write volume data
io_write_nii.nifti	Read and write volume data
io_write_nii.niftiImage	Read and write volume data
io_write_tck	Read or write "TCK" streamlines
io_write_trk	Read or write "TCK" streamlines
io_write_vtk_polys	Read or write surface mesh data in "VTK" format
io_write_vtk_streamlines	Read or write streamline data in "VTK" format
io_write_yaml	Low-level file read and write

-- L --

LazyFST	R6 Class to Load 'FST' Files
LazyH5	Lazy 'HDF5' file loader
low-level-read-write	Low-level file read and write

-- M --

merge.ieegio_surface	Merge two "ieegio" surfaces
merge.ieegio_volume	Merge "ieegio" volumes

-- N --

new_space	Define a coordinate space
niml_as_surface	Read an AFNI/SUMA NIML dataset
niml_find	Read an AFNI/SUMA NIML dataset
NWBHDF5IO	Creates a 'NWBHDF5IO' file container

-- P --

plot.ieegio_colormap_continuous	Plot a color map legend
plot.ieegio_colormap_discrete	Plot a color map legend
plot.ieegio_surface	Plot '3D' surface objects
plot.ieegio_volume	Plot '3D' volume in anatomical slices
print.ieegio_roi	Convert objects to "ieegio" region of interest
print.ieegio_roi_overlap_result	Detect whether two regions of interest overlap
pynwb_module	Install "NWB" via "pynwb"

-- R --

read_bci2000	Read 'BCI2000' data file
read_brainvis	Read 'BrainVision' data
read_colormap	Read a color map file
read_edf	Read 'EDF' or 'BDF' data file
read_nsx	Read ('BlackRock') 'NEV' 'NSx' data
read_nwb	Read 'NWB' format
read_streamlines	Read and write streamlines
read_surface	Read and write surface files
read_volume	Read and write volume data
resample_volume	Down-sample or super-sample volume
resolve_roi_as	Resolve a region of interest into a chosen representation

-- S --

SignalDataCache	Class definition for signal cache
surface_to_surface	Transform surface between coordinate spaces

-- T --

transform_flirt2ras	Convert FLIRT transform to world (RAS) coordinates
transform_orientation	Create transform between coordinate orientations

-- V --

volume_to_surface

Create smooth surface from volume mask or data

-- W --

write_colormap	Write a color map to file
write_edf	Write to 'EDF' format
write_streamlines	Read and write streamlines
write_surface	Read and write surface files
write_volume	Read and write volume data