title: fslr: Connecting the FSL Software with R.
abstract: We present the packagefslr, a set of R functions that interface with FSL (FMRIB Software Library), a commonly-used open-source software package for processing and analyzing neuroimaging data. Thefslrpackage performs operations on 'nifti' image objects in R using command-line functions from FSL, and returns R objects back to the user.fslrallows users to develop image processing and analysis pipelines based on FSL functionality while interfacing with the functionality provided by R. We present an example of the analysis of structural magnetic resonance images, which demonstrates how R users can leverage the functionality of FSL without switching to shell commands.
authors.affiliation: Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21231, USA, jmuschel@jhsph.edu.
authors.forename: John
authors.initials: J
authors.lastname: Muschelli
authors.affiliation: Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21231, USA.
authors.forename: Elizabeth
authors.initials: E
authors.lastname: Sweeney
authors.affiliation: Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21231, USA, mlindqui@jhsph.edu.
authors.forename: Martin
authors.initials: M
authors.lastname: Lindquist
authors.affiliation: Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21231, USA, ccrainic@jhsph.edu.
authors.forename: Ciprian
authors.initials: C
authors.lastname: Crainiceanu