Differences between revisions 45 and 47 (spanning 2 versions)

FMRIB Software Library v5.0

Created by the Analysis Group, FMRIB, Oxford, UK.

FSL is a comprehensive library of analysis tools for FMRI, MRI and DTI brain imaging data. It runs on Apple and PCs (both Linux, and Windows via a Virtual Machine), and is very easy to install. Most of the tools can be run both from the command line and as GUIs ("point-and-click" graphical user interfaces). To quote the relevant references for FSL tools you should look in the individual tools' manual pages, and also please reference one or more of the FSL overview papers:

3. S.M. Smith, M. Jenkinson, M.W. Woolrich, C.F. Beckmann, T.E.J. Behrens, H. Johansen-Berg, P.R. Bannister, M. De Luca, I. Drobnjak, D.E. Flitney, R. Niazy, J. Saunders, J. Vickers, Y. Zhang, N. De Stefano, J.M. Brady, and P.M. Matthews. Advances in functional and structural MR image analysis and implementation as FSL. NeuroImage, 23(S1):208-19, 2004

2. M.W. Woolrich, S. Jbabdi, B. Patenaude, M. Chappell, S. Makni, T. Behrens, C. Beckmann, M. Jenkinson, S.M. Smith. Bayesian analysis of neuroimaging data in FSL. NeuroImage, 45:S173-86, 2009

1. M. Jenkinson, C.F. Beckmann, T.E. Behrens, M.W. Woolrich, S.M. Smith. FSL. NeuroImage, 62:782-90, 2012

Overview of FSL tools
- Functional MRI: FEAT, MELODIC, FABBER, BASIL, VERBENA
- Structural MRI: BET, FAST, FIRST, FLIRT & FNIRT, FSLVBM, SIENA & SIENAX, fsl_anat
- Diffusion MRI: FDT, TBSS, EDDY, TOPUP
- GLM / Stats: GLM general advice, Randomise, Cluster, FDR, Dual Regression, Mm, FLOBS
- Other: FSLView, Fslutils, Atlases, Atlasquery, SUSAN, FUGUE, MCFLIRT, Miscvis, POSSUM, BayCEST
What's new in this release
Support: Email forum, FAQ, tutorials
FSL Course: lecture slides, practicals and example data
Contributors
Related software & FSL plugins
Download, patches and licence

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-[[http://www.ncbi.nlm.nih.gov/pubmed/21979382|1.]] M. Jenkinson, C.F. Beckmann, T.E. Behrens, M.W. Woolrich, S.M. Smith. FSL. !NeuroImage, 62:782-90, 2012
+[[http://www.ncbi.nlm.nih.gov/pubmed/15501092|3.]] S.M. Smith, M. Jenkinson, M.W. Woolrich, C.F. Beckmann, T.E.J. Behrens, H. Johansen-Berg, P.R. Bannister, M. De Luca, I. Drobnjak, D.E. Flitney, R. Niazy, J. Saunders, J. Vickers, Y. Zhang, N. De Stefano, J.M. Brady, and P.M. Matthews. Advances in functional and structural MR image analysis and implementation as FSL. Neuro''''''Image, 23(S1):208-19, 2004
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-[[http://www.ncbi.nlm.nih.gov/pubmed/15501092|3.]] S.M. Smith, M. Jenkinson, M.W. Woolrich, C.F. Beckmann, T.E.J. Behrens, H. Johansen-Berg, P.R. Bannister, M. De Luca, I. Drobnjak, D.E. Flitney, R. Niazy, J. Saunders, J. Vickers, Y. Zhang, N. De Stefano, J.M. Brady, and P.M. Matthews. Advances in functional and structural MR image analysis and implementation as FSL. Neuro''''''Image, 23(S1):208-19, 2004
+[[http://www.ncbi.nlm.nih.gov/pubmed/21979382|1.]] M. Jenkinson, C.F. Beckmann, T.E. Behrens, M.W. Woolrich, S.M. Smith. FSL. !NeuroImage, 62:782-90, 2012
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-  * ~-Functional MRI: [[FEAT]], [[MELODIC]], [[FABBER]], [[BASIL]] -~
+  * ~-Functional MRI: [[FEAT]], [[MELODIC]], [[FABBER]], [[BASIL]], [[verbena|VERBENA]] -~
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-  * ~-Other: [[http://fsl.fmrib.ox.ac.uk/fsl/fslview/|FSLView]], [[Fslutils]], [[Atlases]], [[Atlasquery]], [[SUSAN]], [[FUGUE]], [[MCFLIRT]], [[Miscvis]], [[POSSUM]]-~
+  * ~-Other: [[http://fsl.fmrib.ox.ac.uk/fsl/fslview/|FSLView]], [[Fslutils]], [[Atlases]], [[Atlasquery]], [[SUSAN]], [[FUGUE]], [[MCFLIRT]], [[Miscvis]], [[POSSUM]], [[baycest|BayCEST]] -~