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by Olivier Coulon
Thu Sep 30, 2010 3:09 pm
Forum: BrainVISA
Topic: parcellation and functional connectivity analysis
Replies: 1
Views: 1468

Re: parcellation and functional connectivity analysis

Hi Bruno, I have used the 'create surface based functional data' with, as far as I know from the fact that the process didn't output any errors, success. Well done, you're one of the first. - Does a routine exists to average the extracted time courses of all nodes of a parcell ? No but I will build ...
by Olivier Coulon
Mon Jul 05, 2010 9:50 am
Forum: BrainVISA
Topic: Cortical surface toolbox - surface analysis pipeline
Replies: 17
Views: 7076

Re: Cortical surface toolbox - surface analysis pipeline

Thank you for fixing all this Denis.

Olivier
by Olivier Coulon
Mon Jun 21, 2010 10:30 am
Forum: BrainVISA
Topic: Font problem with BV 4.0 on Mandriva 2010
Replies: 3
Views: 1949

Re: Font problem with BV 4.0 on Mandriva 2010

OK, thank you Dominique and Denis, I'll try all that today.

Olivier
by Olivier Coulon
Thu Jun 17, 2010 1:09 pm
Forum: BrainVISA
Topic: Font problem with BV 4.0 on Mandriva 2010
Replies: 3
Views: 1949

Font problem with BV 4.0 on Mandriva 2010

Hello,
I have just installed BV 4.0 on a Mandriva 2010. It works but with a weirds font (see image).
Any idea why ?

Olivier

Image
by Olivier Coulon
Tue Jun 15, 2010 5:34 pm
Forum: BrainVISA
Topic: Cortical surface toolbox - surface analysis pipeline
Replies: 17
Views: 7076

Re: Cortical surface toolbox - surface analysis pipeline

The warnings are alright, they are just leftovers of old debug information. To get grey Matter volume, I think you need to make sure that the 'Parcellation' field is set to 'Cortical Ribbon'. After that I am not sure because I did not write this process but I think that one of the output arguments i...
by Olivier Coulon
Wed Jun 09, 2010 6:07 pm
Forum: BrainVISA
Topic: Cortical surface toolbox - surface analysis pipeline
Replies: 17
Views: 7076

Re: Cortical surface toolbox - surface analysis pipeline

Hello Aurely, For that I ran the parametrisation of cortical surface pipeline. The operation succeeded and all seems to be good. Well done ! After that, to have the volume, I tried to launch the surface analysis pipeline. But I don't know how to fill in the field "contrast". it seems it ha...
by Olivier Coulon
Wed Nov 18, 2009 11:22 am
Forum: Anatomist
Topic: Keeping windows synchronized under zero gravity mode
Replies: 6
Views: 3753

Re: Keeping windows synchronized under zero gravity mode

But when I create the group and that I turn one brain in one window, the other ones are not synced ... Same if I display axial slices. Do I have to do anything specific ?
By the way, Ctrl+L does not work for me, I have to go to "window->link windows".
Thanks,

olivier
by Olivier Coulon
Tue Nov 17, 2009 9:09 am
Forum: Anatomist
Topic: Keeping windows synchronized under zero gravity mode
Replies: 6
Views: 3753

Re: Keeping windows synchronized under zero gravity mode

I would like this post as an opportunity to learn more about Ctrl+L. It links windows ina group, but what can we do after this ? I see the group in the main window but there is no specific synchronization. In fact, nothing happens. Am I missing something ?
Olivier
by Olivier Coulon
Fri Oct 16, 2009 10:35 am
Forum: AIMS
Topic: series of 3D files to a 4D file
Replies: 3
Views: 5836

Re: series of 3D files to a 4D file

Thank you ! I will try and use this.

olivier
by Olivier Coulon
Thu Oct 15, 2009 11:00 am
Forum: AIMS
Topic: series of 3D files to a 4D file
Replies: 3
Views: 5836

series of 3D files to a 4D file

Hello, I can't seem to find the Aims command that takes a series of 3D files and turns it into a single 4D file. I thought there was one... Is it AimsFileConvert ? There is BV process in tools->converters that is called "Volume Series to single file" but it won't let me select a series of ...
by Olivier Coulon
Mon Oct 12, 2009 8:29 pm
Forum: BrainVISA
Topic: 'list index out of range' when trying to use registration
Replies: 3
Views: 2266

Re: 'list index out of range' when trying to use registration

Thank you Yann, that was the problem. When images come from other software they do not necessarily set 4 dimensions for a 3D volume, so I just needed to do a AimsFileConvert.
Thanks again,

Olivier
by Olivier Coulon
Fri Oct 09, 2009 2:25 pm
Forum: BrainVISA
Topic: 'list index out of range' when trying to use registration
Replies: 3
Views: 2266

'list index out of range' when trying to use registration

Hi, I tried to register a functional image to the same subject's T1 image using the "Rigid registration with mutual information" process, and I get the same error than in this post : http://brainvisa.info/forum/viewtopic.php?f=2&t=1348 . It shows as follows : in Rigid registration with...
by Olivier Coulon
Fri Oct 09, 2009 10:20 am
Forum: BrainVISA
Topic: Converting a database to the new 3.1 format
Replies: 1
Views: 1539

Converting a database to the new 3.1 format

Hello there, I am working with a old database (3.0) and converted it to a new database (using the convert database tool). Then when I use some other BV process, some fields are not filled in because there seem to be a problem with minf files that were generated in the old database, they are not reco...
by Olivier Coulon
Tue Oct 06, 2009 4:52 pm
Forum: BrainVISA
Topic: cortical surface-based functional analysis
Replies: 20
Views: 8358

Re: cortical surface-based functional analysis

Hello, I will get in touch with Grégory (who created the process) and see what he thinks of that. I will (or he will) let you know.

olivier
by Olivier Coulon
Thu Sep 03, 2009 10:10 am
Forum: BrainVISA
Topic: cortical surface-based functional analysis
Replies: 20
Views: 8358

Re: cortical surface-based functional analysis

Hello,
I'm afraid voxel size is not the issue. Anatomist can correct for that when it displays images and brainvisa takes it into account when processing images. From what I saw, I guess it could be a problem of origin, maybe you could check where is the origin in both scans.

Olivier

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