IBASPM (http://www.thomaskoenig.ch/Lester/ibaspm.htm) works with the AAL atlas, which is based on a single subject. The use of a single subject exposes you to systematic error (see eg. Heckemann RA et al. Neuroimage 2006, Klein et al. BMC Med Imaging 2005, Svarer C et al. Neuroimage 2005, Rodionov R et al. Magn Reson Imaging 2009, Rohlfing T et al. Neuroimage 2004, and my recent posts on this helpline for further pointers).
There are very good automatic labelling methods around now (e.g. MAPER (Heckemann RA et al. NI 2010)), which can approach the gold standard accuracy of manual segmentation. You could achieve reasonable accuracy - which would be intermediate between MAPER or other computationally intensive methods like Freesurfer mentioned by John Fredy - if you use backnormalisation of an atlas based on _many_ subjects, e.g. a maximum probability map described in Hammers, Allom et al. 2003 (the current version contains 83 regions, see Gousias IS et al. Neuroimage 2008).
The procedure is easy (and in principle the same for any atlas in MNI space, including AAL and others) - you use the individual's *_seg_inv.mat file created anyway during VBM preprocessing, apply it to the maximum probability map in MNI space, and a few seconds later the w-atlas is in your individual's space and you can sample the volume.
If you're interested in the maximum probability map, drop me an email for a one-page free academic licence.
Hope this helps,
Alexander Hammers, MD PhD
Chair in Functional Neuroimaging
CERMEP – Imagerie du Vivant
Hôpital Neurologique Pierre Wertheimer
59 Boulevard Pinel, 69003 Lyon, France
Telephone +33-(0)4-72 68 86 34
Fax +33-(0)4-72 68 86 10
Email [log in to unmask];[log in to unmask]
Visiting Reader; Honorary Consultant Neurologist
Division of Neuroscience and Mental Health, Faculty of Medicine
Imperial College London, UK
Honorary Reader in Neurology; Honorary Consultant Neurologist
Department of Clinical and Experimental Epilepsy
National Hospital for Neurology and Neurosurgery/ Institute of Neurology, University College London, UK
On 21 Mar 2011, at 13:25, Maria Serra Blasco wrote:
> Dear all,
> Currently I am a SPM8 user and I would need to know the volume of a specific structure, such as cingulate cortex. I have found a tool named IBASPM that performs individual segmentation of each subject matching it with a MNI Atlas, which gives you information of the volume of each brain area. Unfortunately, this tool only runs with SPM2 or SPM5.
> Is There any other way to know this information trough SPM8 or with a compatible tool?
> Thank you in advance,
> Maria Serra
> PIC (Port d'Informació Científica)
> Campus UAB, Edifici D
> E-08193 Bellaterra, Barcelona
> Telf. +34 93 586 8232