Freesurfer: Connecting the Freesurfer software with R [version 1; referees: 2 approved]

Research output: Contribution to journalArticle

Abstract

We present the package freesurfer, a set of R functions that interface with Freesurfer, a commonly-used open-source software package for processing and analyzing structural neuroimaging data, specifically T1-weighted images. The freesurfer package performs operations on nifti image objects in R using command-line functions from Freesurfer, and returns R objects back to the user. freesurfer allows users to process neuroanatomical images and provides functionality to convert and read the output of the Freesurfer pipelines more easily, including brain images, brain surfaces, and Freesurfer output tables.

Original languageEnglish (US)
Article number599
JournalF1000Research
Volume7
DOIs
StatePublished - Jan 1 2018

Fingerprint

Brain
Software
Neuroimaging
Software packages
Interfaces (computer)
Pipelines
Processing
Open source software

Keywords

  • Freesurfer
  • Neuroconductor
  • Neuroimaging
  • R

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Immunology and Microbiology(all)
  • Pharmacology, Toxicology and Pharmaceutics(all)

Cite this

Freesurfer : Connecting the Freesurfer software with R [version 1; referees: 2 approved]. / Muschelli, John; Sweeney, Elizabeth; Crainiceanu, Ciprian M.

In: F1000Research, Vol. 7, 599, 01.01.2018.

Research output: Contribution to journalArticle

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