FSL
Open accessAbstract
FSL (the FMRIB Software Library) is a comprehensive library of analysis tools for functional, structural and diffusion MRI brain imaging data, written mainly by members of the Analysis Group, FMRIB, Oxford. For this NeuroImage special issue on "20 years of fMRI" we have been asked to write about the history, developments and current status of FSL. We also include some descriptions of parts of FSL that are not well covered in the existing literature. We hope that some of this content might be of interest to users of FSL, and also maybe to new research groups considering creating, releasing and supporting new software packages for brain image analysis.
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All data sets were corrected for head motion, eddy currents and susceptibility distortions and are, in general, of very high quality.
“All data sets were corrected for head motion, eddy currents and susceptibility distortions and are, in general, of very high quality69–73.”
From Tractography-based connectomes are dominated by false-positive connections (2016) · cites this paper as [72]
The FUGUE section describes an FSL tool for correcting EPI distortions, so the paper supports the availability of a relevant correction method. It does not say that the citing authors’ data sets underwent all three corrections or establish that those data sets were of very high quality; searches for head-motion and eddy-current correction did not establish those claims. (LLM, conf=0.86)
Experimental — accuracy not yet measuredThe performance of sophisticated registration tools such as FSL and ANTs is limited by nontrivial factors.
“While there are many sophisticated tools to compute these registrations such as FSL (Jenkinson et al., 2012) and ANTs (Avants et al., 2009), the performance is limited by nontrivial factors.”
From Quantitative mapping of the brain’s structural connectivity using diffusion MRI tractography: A review (2022) · cites this paper as Jenkinson et al., 2012
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- Authors
- Jenkinson, M., Beckmann, C. F., Behrens, T. E. J., Woolrich, M. W., & Smith, S. M.
- Affiliations
- University of Oxford (GB)
- Corresponding author
- Jenkinson, Mark
- Venue
- NeuroImage
- Publisher
- Elsevier BV
- Published
- 2012-08
- Volume
- 62
- Issue
- 2
- Pages
- 782-790
- ISSN
- 1053-8119 (ISSN-L)
- OpenAlex
- W2977883299
- Cited by
- 11,314
- References
- 18
- Citations by year
- 2026: 995 · 2025: 1331 · 2024: 1189 · 2023: 1077 · 2022: 1062 · 2021: 1090 · 2020: 1024 · 2019: 827 · 2018: 713 · 2017: 592 · 2016: 531 · 2015: 456 · 2014: 269 · 2013: 142 · 2012: 10
- FWCI
- 102.30
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- NeuroImage (publishedVersion)
- PubMed (publishedVersion)
- HAL (submittedVersion, other-oa)
- Funders
- Engineering and Physical Sciences Research Council (EP/F05727X/1)
- Topics
- Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Advanced MRI Techniques and Applications
- Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Advanced Neuroimaging Techniques and Applications
- Life Sciences › Neuroscience › Cognitive Neuroscience › Functional Brain Connectivity Studies
- Keywords
- FSL, functional MRI, structural MRI, diffusion MRI, software development history, open source software
- MeSH terms
- Brain, Brain Mapping, Humans, Image Processing, Computer-Assisted, Software, Diffusion Magnetic Resonance Imaging, History, 20th Century, History, 21st Century
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