Package fslr details

Wrapper Functions for 'FSL' ('FMRIB' Software Library) from Functional MRI of the Brain ('FMRIB')

Wrapper functions that interface with 'FSL' , a powerful and commonly-used 'neuroimaging' software, using system commands. The goal is to be able to interface with 'FSL' completely in R, where you pass R objects of class 'nifti', implemented by package 'oro.nifti', and the function executes an 'FSL' command and returns an R object of class 'nifti' if desired.

Maintainer: John Muschelli < muschellij2 at >

From within R, enter citation(fslr)

Jenkinson M, Beckmann CF, Behrens TE, Woolrich MW, Smith SM (2012).
"FSL." _Neuroimage_, *62*(2), 782-790.

Muschelli J, Sweeney E, Lindquist M, Crainiceanu C (2015). "fslr:
Connecting the FSL Software with R." _The R Journal_, *7*(1), 163-175.

To see these entries in BibTeX format, use 'print(,
bibtex=TRUE)', 'toBibtex(.)', or set


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:


# Default Install

# From the Binary Repo in NeuroC
neuro_install('fslr', release = "stable", release_repo = binary_release_repo(release = "stable"))
neuro_install('fslr', release = "current", release_repo = binary_release_repo(release = "current"))

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

More detailed installation instructions can be found here.


Initially submitted on October 2 2018 2:34PM
Last updated on September 16 2019 12:02AM
Package type standard
Source GitHub GitHub
Neuroconductor GitHub GitHub
System requirementsfsl
Dependsoro.nifti (0.5.0), neurobase, R (3.2.0)
Importsmethods, R.utils, graphics, grDevices, stats, utils
Suggestsknitr, rmarkdown, covr
Reverse Importsoasis (2.13), dcmsort, ichseg (2.4), pbj, extrantsr (2.17.1), smri.process (2.19.0), mimosa (2.24.1)
Reverse Suggestsfreesurfer (2.9.2)