Hi - yes, you should output the partial volume segmentations and then
use avwstats++ to estimate the total tissue volume in each class.
Cheers.
On 9 Apr 2007, at 18:17, Thomas Doring wrote:
> Hi,
> i need some help...
> i am testing FAST but still have some problems.
>
> With 2D data (t2_axial): BET and Susan run Ok, in FAST after finishing
> the program it doesnt return the volume of the parcial segmented
> tissues. I sent you the command line output :
>
>
> /usr/local/fsl/bin/fast -t2 -c 3 -op -e -ov -or -ob
> -od /root/Desktop/TestDATA_FSL_FA_Completo/THOMAS/1_4/
> THOMAS_1_4_brain /root/Desktop/TestDATA_FSL_FA_Completo/THOMAS/1_4/
> THOMAS_1_4_brain
> 172683.6 609808.6 306740.8
> FAST - FMRIB's Automated Segmentation Tool Version 3.53
>
> Image: /tmp/fsl_XOnsuk_THOMAS_1_4_brain
>
> T2-weighted image
> Imagesize : 320 x 320 x 30
> Pixelsize : 0.70625 x 0.70625 x 4.2
>
> Initial K-means segmentation...
> 8 main iterations ...
> Estimating PVE...
>
> Segmentation done successfully!
>
> Calculation time 131 seconds!
>
> Write segmentation image /tmp/fsl_XOnsuk.fastout/QQQQQ_seg.hdr
> Successfully!
> Write restored image /tmp/fsl_XOnsuk.fastout/QQQQQ_restore.hdr
> Successfully!
> Write bias field image /tmp/fsl_XOnsuk.fastout/QQQQQ_bias.hdr
> Successfully!
> Write probability map of tissue 0 Successfully!
> Write probability map of tissue 1 Successfully!
> Write probability map of tissue 2 Successfully!
> Write PVE image of tissue 0 Successfully!
> Write PVE image of tissue 1 Successfully!
> Write PVE image of tissue 2 Successfully!
>
> Class: CSF tissue 1 tissue 2 brain
> percentage
> Volumes: 0.841463
> Finished
>
> Thanks for help
> Thomas
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Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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