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neuroelf_introduction [2011/04/30 04:38]
jochen changed logo to version-less
neuroelf_introduction [2014/06/07 06:07]
jochen Added blurb about 3D drawing
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 NeuroElf is a [[http://​www.mathworks.com/​products/​matlab/​|Matlab]]-based toolbox for working with neuro-imaging data. Please be aware that NeuroElf was and is not meant as a replacement for any of the more traditional and full-fledged neuro-imaging tools (such as [[http://​www.brainvoyager.com/​products/​brainvoyagerqx.html|BrainVoyager QX]], [[http://​www.fil.ion.ucl.ac.uk/​spm/​software/​spm8/​|SPM]],​ [[http://​afni.nimh.nih.gov/​afni|AFNI]],​ [[http://​www.fmrib.ox.ac.uk/​fsl/​|FSL]],​ [[http://​surfer.nmr.mgh.harvard.edu/​|FreeSurfer]],​ ...), but rather meant to be used in addition to those, as it augments some of their functionality,​ facilitating a few of the tasks that might otherwise be more difficult to achieve for those researchers who are not as familiar with coding their own routines in Matlab. NeuroElf is a [[http://​www.mathworks.com/​products/​matlab/​|Matlab]]-based toolbox for working with neuro-imaging data. Please be aware that NeuroElf was and is not meant as a replacement for any of the more traditional and full-fledged neuro-imaging tools (such as [[http://​www.brainvoyager.com/​products/​brainvoyagerqx.html|BrainVoyager QX]], [[http://​www.fil.ion.ucl.ac.uk/​spm/​software/​spm8/​|SPM]],​ [[http://​afni.nimh.nih.gov/​afni|AFNI]],​ [[http://​www.fmrib.ox.ac.uk/​fsl/​|FSL]],​ [[http://​surfer.nmr.mgh.harvard.edu/​|FreeSurfer]],​ ...), but rather meant to be used in addition to those, as it augments some of their functionality,​ facilitating a few of the tasks that might otherwise be more difficult to achieve for those researchers who are not as familiar with coding their own routines in Matlab.
  
 +===== Core elements =====
 Core elements of the toolbox'​s functionality are Core elements of the toolbox'​s functionality are
  
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 On top of this "​core"​ functionality operates a [[neuroelf_gui|GUI]] that allows the user to access some of the functionality of the core elements via dialogs and forms. In particular it is able to visualize voxel- and surface-based objects, to compute (in a limited capacity) and display statistical results, and create tables and screenshots of those. On top of this "​core"​ functionality operates a [[neuroelf_gui|GUI]] that allows the user to access some of the functionality of the core elements via dialogs and forms. In particular it is able to visualize voxel- and surface-based objects, to compute (in a limited capacity) and display statistical results, and create tables and screenshots of those.
 +
 +Another set of features covers the ease by which data can be manipulated,​ but from the command line and the graphical user interface. Particularly the 3D drawing tools have been substantially enhanced in recent releases.
  
 Additionally,​ some automatization routines (e.g. a small UI for batching preprocessing of multiple subjects using the functionality of SPM5/8), analysis functionality (e.g. robust regression of second-level neuroimaging data), as well as some further visualization capabilities (e.g. display of VOI-based averaged trial-locked BOLD responses) are provided. Additionally,​ some automatization routines (e.g. a small UI for batching preprocessing of multiple subjects using the functionality of SPM5/8), analysis functionality (e.g. robust regression of second-level neuroimaging data), as well as some further visualization capabilities (e.g. display of VOI-based averaged trial-locked BOLD responses) are provided.
  
 +===== Installation =====
 For installation instructions,​ please [[NeuroElf installation|read on...]] And you might also want to check out the [[NeuroElf features|list of features]] of the toolbox. For installation instructions,​ please [[NeuroElf installation|read on...]] And you might also want to check out the [[NeuroElf features|list of features]] of the toolbox.
 +
 +===== Compatibility =====
 +Given that Matlab'​s syntax has changed over the years, and some features are not available in very old versions, currently NeuroElf runs (to the best of my knowledge) under the following environments:​
 +
 +  * Microsoft Windows (tested under Windows XP and Windows 7), using Matlab Version v7.5 (R2007b) and onwards
 +  * Linux (tested under S.u.S.E. Linux 11.2, 64-bit edition as well as Ubuntu 10, 32-bit edition), using Matlab Version v7.5 (R2007b) and onwards
 +  * Mac OSX (tested under Mac OSX 10.5 and 10.6 on an iMac with 64-bit support as well as a OSX 10.4 PPC PowerMac), using Matlab Version v7.5 (R2007b) and onwards
 +  * additionally,​ NeuroElf v0.9c recently added (basic) support for [[http://​www.gnu.org/​software/​octave/​|GNU Octave]], starting with version v3.4.0 (currently available for Intel-based Macs and as source code); **please note that no GUI elements currently work under GNU Octave!** (a restriction hopefully going away for future Octave versions...)
  
neuroelf_introduction.txt ยท Last modified: 2014/06/07 06:09 by jochen