R: Wrapper Functions for 'Freesurfer'

# Wrapper Functions for 'Freesurfer'

## Documentation for package ‘freesurfer’ version 1.8.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

aparcstats2table | Parcellation Stats to Table
aparcstats2table.help | Parcellation Stats to Table Help
aparcs_to_bg | Convert Freesurfer aparcs Table to brainGraph
asegstats2table | Parcellation Stats to Table
asegstats2table.help | Parcellation Stats to Table Help
autorecon1 | Reconstruction from Motion Correction to Skull Strip
autorecon2 | Reconstruction from Motion Correction to Skull Strip
autorecon3 | Reconstruction from Motion Correction to Skull Strip
checkmnc | Force object to filename with .mnc extension
checkmnc-method | Force object to filename with .mnc extension
checkmnc-methods | Force object to filename with .mnc extension
check_fs_result | Check Freesurfer Result
construct_subj_dir | Construct Subject Directory
convert_surface | Convert Freesurfer Surface
ensure_mnc | Force object to filename with .mnc extension
freesurferdir | Get Freesurfer's Directory
freesurfer_dir | Get Freesurfer's Directory
freesurfer_read3 | Freesurfer Read 3 records
freesurfer_read3_con | Freesurfer Read 3 records
freesurfer_read_curv | Read Freesufer Curv file
freesurfer_read_surf | Read Freesurfer Surface file
fs_cmd | FS Command Wrapper
fs_dir | Get Freesurfer's Directory
fs_help | Wrapper for getting Freesurfer help
fs_imgext | Determine extension of image based on FSLOUTPUTTYPE
fs_lut | Freesurfer look up table (LUT)
fs_subj_dir | Determine Freesurfer Subjects Directory
fs_version | Find Freesurfer Version
get_fs | Create command declaring FREESURFER_HOME
get_fs_output | Determine Freesurfer output type
have_fs | Logical check if Freesurfer is accessible
mnc2nii | Convert MNC to NIfTI
mnc2nii.help | MNC to NIfTI Help
mris_convert | Use Freesurfers MRIs Converter
mris_convert.help | Help file for Freesurfers MRIs Converter
mris_convert_annot | Convert Annotation file
mris_convert_curv | Convert Curvature file
mris_convert_normals | Convert Surface to Surface normals
mris_convert_vertex | Convert Surface to vertex file
mris_euler_number | MRI Euler Number
mris_euler_number.help | MRI Euler Number Help
mri_convert | Use Freesurfers MRI Converter
mri_convert.help | MRI Normalize Help
mri_deface | MRI Deface
mri_info | MRI information
mri_info.help | MRI information Help
mri_mask | Use Freesurfers MRI Mask
mri_mask.help | MRI Normalize Help
mri_normalize | Use Freesurfers MRI Normalize Algorithm
mri_normalize.help | MRI Normalize Help
mri_segment | Use Freesurfers MRI Segmentation Algorithm
mri_segment.help | MRI Segment Help
mri_surf2surf | Use Freesurfers 'mri_surf2surf' function to resamples one cortical surface onto another
mri_surf2surf.help | Freesurfers mri_surf2surf Help
mri_synthstrip | Use Freesurfers MRI SynthStrip
mri_synthstrip.help | MRI Normalize Help
mri_watershed | Use Freesurfers MRI Watershed Algorithm
mri_watershed.help | MRI Watershed Help
nii2mnc | Convert NIfTI to MNC
nii2mnc.help | Convert NIfTI to MNC Help
nu_correct | Use Freesurfers Non-Uniformity Correction
nu_correct.help | Non-Uniformity Correction Help
readmgh | Read MGH or MGZ File
readmgz | Read MGH or MGZ File
readmnc | Read MNC File
read_annotation | Read Freesurfer annotation file
read_aseg_stats | Read Anatomical Segmentation Statistics
read_fs_label | Read Label File
read_fs_table | Read Freesurfer Table Output
recon | Reconstruction from Freesurfer
reconner | Reconstruction Helper for recon from Freesurfer
recon_all | Reconstruction from Freesurfer for All Steps
recon_con1 | Reconstruction from Motion Correction to Skull Strip
recon_con1,recon_con2,recon_con3 | Reconstruction from Motion Correction to Skull Strip
recon_con2 | Reconstruction from Motion Correction to Skull Strip
recon_con3 | Reconstruction from Motion Correction to Skull Strip
run_check_fs_cmd | Run and Check a Freesurfer Command
set_fs_subj_dir | Set Freesurfer Subjects Directory
surface_to_obj | Convert Freesurfer Surface to Wavefront OBJ
surface_to_triangles | Convert Freesurfer Surface to Triangles
surf_convert | Convert Surface Data to ASCII
synthstrip | Use Freesurfers MRI SynthStrip
tracker | Tract Reconstruction Helper for trac-all from Freesurfer
trac_all | Tract Reconstruction Helper for trac-all from Freesurfer for All Steps
trac_bedpost | Tract Reconstruction for Each Step
trac_path | Tract Reconstruction for Each Step
trac_prep | Tract Reconstruction for Each Step