Package freesurferformats details

Read and Write 'FreeSurfer' Neuroimaging File Formats

Provides functions to read and write neuroimaging data in various file formats, with a focus on 'FreeSurfer' formats. This includes, but is not limited to, the following file formats: 1) MGH/MGZ format files, which can contain multi-dimensional images or other data. Typically they contain time-series of three-dimensional brain scans acquired by magnetic resonance imaging (MRI). They can also contain vertex-wise measures of surface morphometry data. The MGH format is named after the Massachusetts General Hospital, and the MGZ format is a compressed version of the same format. 2) 'FreeSurfer' morphometry data files in binary 'curv' format. These contain vertex-wise surface measures, i.e., one scalar value for each vertex of a brain surface mesh. These are typically values like the cortical thickness or brain surface area at each vertex. 3) Annotation file format. This contains a brain surface parcellation derived from a cortical atlas. 4) Surface file format. Contains a brain surface mesh, given by a list of vertices and a list of faces.

Maintainer: Tim Sch < ts+code at rcmd.org >

 
From within R, enter citation('freesurferformats')


To cite package 'freesurferformats' in publications use:

Tim Sch?fer (NA). freesurferformats: Read and Write 'FreeSurfer'
Neuroimaging File Formats. R package version 0.1.13.
https://github.com/dfsp-spirit/freesurferformats

A BibTeX entry for LaTeX users is

@Manual{,
title = {freesurferformats: Read and Write 'FreeSurfer' Neuroimaging File Formats},
author = {Tim Sch?fer},
note = {R package version 0.1.13},
url = {https://github.com/dfsp-spirit/freesurferformats},
}

 

If you have any problems with this package you can open a new issue or check the already existing ones here.

 
 
To install this package, start R and enter:

source("https://neuroconductor.org/neurocLite.R")

# Default Install
neuro_install('freesurferformats')

# from GitHub
neuro_install('freesurferformats', release = "stable", release_repo = "github")
neuro_install('freesurferformats', release = "current", release_repo = "github")

More detailed installation instructions can be found here.

 

Initially submitted on September 11 2020 8:35AM
Last updated on September 22 2020 3:35AM
Package type standard
Source GitHub https://github.com/dfsp-spirit/freesurferformats GitHub
Neuroconductor GitHub https://github.com/neuroconductor/freesurferformats GitHub
Importspkgfilecache (0.1.1), xml2
Suggestsknitr, rmarkdown, testthat (2.1.0), oro.nifti (0.9), gifti (0.7.5), cifti (0.4.5)
Reverse Importsfsbrain (0.1.12)