Search found 62 matches

by houenou
Fri Oct 05, 2012 10:21 pm
Forum: BrainVISA
Topic: "Head Mesh" in Morphologist 2012
Replies: 1
Views: 3171

"Head Mesh" in Morphologist 2012

Hi,
The "head mesh" in morphologist 2012 looks to be out of order = the process goes well (as well as the previous and following steps).
Nevertheless, no "head...." file is created (corresponding to the head mesh which was quite beautiful for illustrative purposes)
Thanks
Josselin
by houenou
Thu Feb 09, 2012 12:13 pm
Forum: BrainVISA
Topic: Morphologist 2012
Replies: 1
Views: 2529

Morphologist 2012

Hi, I have seen that in the new version of BV 4.2, the morphologist pipeline name has been changed to Morphologist "2012". From the changelog, it is not clear what are the changes to this pipeline. Which parts of this pipeline have been modified ? and do you recommend to re-run the pipelin...
by houenou
Sat Oct 08, 2011 9:07 pm
Forum: BrainVISA
Topic: Measuring bundle volume
Replies: 4
Views: 4305

Re: Measuring bundle volume

Thanks for your explanations,
Yes I already used this field (or the AImsRoiFeatures I can't remember).
I think this stat is useful to estimate the volume of a bundle. In the literature this kind of metric seems now more used than the the number of reconstructed fibers.

Josselin
by houenou
Mon Oct 03, 2011 5:14 pm
Forum: BrainVISA
Topic: Measuring bundle volume
Replies: 4
Views: 4305

Re: Measuring bundle volume

Hi, Thanks for your help. About this 'point_count' statistic: does it count the number of voxels crossed by fibers OR the number of total voxels included in the bundle i.e. if several fibers cross a single voxel, will this voxel be counted several times ? About your question about my usage of DTI pi...
by houenou
Sun Oct 02, 2011 5:52 pm
Forum: BrainVISA
Topic: Measuring bundle volume
Replies: 4
Views: 4305

Measuring bundle volume

Hi, I can't remember how I can get the "volume" of a bundle created with Brainvisa. By volume, I mean the number of voxels crossed by the bundles. Is it with comistBundleAnalysis where I can see this -o option: points_count: the total number of curves points in a bundle What do you mean by...
by houenou
Sun Jul 10, 2011 1:06 pm
Forum: BrainVISA
Topic: Hippocampus and amygdala segmentation (SACHA)
Replies: 1
Views: 3441

Hippocampus and amygdala segmentation (SACHA)

Hi, I have read papers about the Sacha module in Brainvisa (e.g. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2677639/ by Chupin et al., 2009). I would be interested in using it. Unfortunately, I can't find it anywhere in the Brainvisa website nor anywhere else. Do anyone know where I can find it ? T...
by houenou
Sun Nov 28, 2010 11:38 pm
Forum: BrainVISA
Topic: Bad segmentation of corpus callosum in T1 pipeline
Replies: 1
Views: 2472

Bad segmentation of corpus callosum in T1 pipeline

Dear all, I have a problem with the T1 pipeline with one subject. The T1 pipeline doesn't include in its mask a part of the corpus callosum (a dorsal and posterior part) I think it is mostly because of T1 bias correction as I can see the same bug on the hfiltered image I have tried to tweak the fiel...
by houenou
Tue Aug 31, 2010 10:13 pm
Forum: BrainVISA
Topic: .arg files improperly handled in BV4 for windows ?
Replies: 6
Views: 5791

Re: .arg files improperly handled in BV4 for windows ?

Hi Dominique, You were right, I tried to load the same bundle files (whole brain tractography) on different systems: -linux : no problem, whether the version of BV -windows : unable to correctly load the file, whether the version of BV What is more annoying is that processing through diffusion pipel...
by houenou
Wed Aug 11, 2010 6:06 am
Forum: BrainVISA
Topic: .arg files improperly handled in BV4 for windows ?
Replies: 6
Views: 5791

Re: .arg files improperly handled in BV4 for windows ?

Hi Isabelle, When I try to overlay my .bundles files on a .ima image in anatomist on Windows, I have the following warning message in the command line MS-DOS box: "OpenGL error tex:memoire insuffisante TexImage failed ~GLTexture - Bad GL texteure - 0" The bundles file is large (whole brain...
by houenou
Tue Aug 03, 2010 10:15 am
Forum: BrainVISA
Topic: .arg files improperly handled in BV4 for windows ?
Replies: 6
Views: 5791

Re: .arg files improperly handled in BV4 for windows ?

Hi, It is more sensible with .bundles file e.g. when I try to load a file called niania.bundles into Anatomist, it loads it, but I can't see any node in this object in anatomist. When I paste this bundles file onto its reference image, nothing appears in this image. furthermore, in brainvisa, when I...
by houenou
Fri Jul 23, 2010 5:51 pm
Forum: BrainVISA
Topic: skull stripping of T1, b0, T2 and DTI images
Replies: 1
Views: 2897

skull stripping of T1, b0, T2 and DTI images

Hello,

I would like to know if any process in Brainvisa is able to skull strip T1, b0, T2 and DTI images ? Else, which software do you recommend (BET/FSL, SPM8) ?

thanks !
Josselin
by houenou
Thu Jul 22, 2010 9:57 pm
Forum: BrainVISA
Topic: .arg files improperly handled in BV4 for windows ?
Replies: 6
Views: 5791

.arg files improperly handled in BV4 for windows ?

Hi, I have installed BV 4.0 on a windows xp laptop (with 4 GB RAM). It works fine except when I want to display .arg files: -in anatomist: I can't overlay correctly .arg files on templates -in brainvisa: processes using .arg files aren't working correctly (as in diffusion pipeline) I must note that ...
by houenou
Thu Jul 22, 2010 7:32 pm
Forum: BrainVISA
Topic: question about .brules files
Replies: 2
Views: 3011

question about .brules files

Hi, I have a question about .brules files. I use it in the "diffusion bundles transformation" component. The documentation in brainvisa is perfect except I can't find how you can "exclude" ROI i.e. = I have got a set of >100 ROI and I want to select bundles going through ROI n° 2...
by houenou
Thu Jun 17, 2010 5:14 am
Forum: BrainVISA
Topic: Error message in Tracking pipeline
Replies: 7
Views: 5038

Re: Error message in Tracking pipeline

Hello,
It occurs probably because in the menu "Brainvisa/preferences", you have not set your "userlevel" to "expert".
Josselin
by houenou
Tue Jun 15, 2010 9:21 pm
Forum: BrainVISA
Topic: volume calculation
Replies: 9
Views: 6211

Re: volume calculation

Hi,
Thanks. Is the volume resuls given in mm3 or in voxels ?
Josselin