Search found 45 matches

by PeterK
Thu May 31, 2018 12:47 pm
Forum: BrainVISA
Topic: Off line install for MAC
Replies: 1
Views: 2644

Off line install for MAC

Hi, it seems like the online Mac installation is broken for both 4.5 and 4.6. Is there a way I could download and install the packages manually?
thanks
by PeterK
Tue Mar 22, 2016 5:44 pm
Forum: BrainVISA
Topic: Problem with installing brain visa on a mac
Replies: 3
Views: 4759

Problem with installing brain visa on a mac

Hi, I am trying to install the latest version of brain visa and I am running into the problems like this one Error during installation process (brainvisa.app.cortical_surface.usrdoc.freesurfer_plugin_usrdoc): Could not open installer://brainvisa.app.cortical_surface.usrdoc.freesurfer_plugin_usrdoc/4...
by PeterK
Thu Jun 07, 2012 2:38 pm
Forum: BrainVISA
Topic: Issue with the mesh format for the latest version
Replies: 5
Views: 3243

Re: Issue with the mesh format for the latest version

Hello, I just wanted to add some context to the issue that Peter is referring to. I am using his RIC toolbox to estimate cortical thickness, which makes use of gray matter and white matter meshes generated at the end of the Morphologist 2012 pipeline. It seems like it asserts something about the me...
by PeterK
Wed Jun 06, 2012 2:15 pm
Forum: BrainVISA
Topic: Issue with the mesh format for the latest version
Replies: 5
Views: 3243

Issue with the mesh format for the latest version

There seems to be a niggling problem with the mesh files created by the latest version of brainvisa (4.2.x). If I attempt to read it as an AIMs format, the number of normal vectors is set to 0. Opening and saving it with anatomist restores the good state of the mesh. Was there a recent change in the...
by PeterK
Wed May 27, 2009 4:20 pm
Forum: Anatomist
Topic: How to spool graphe+ mesh data to anatomist from a script?
Replies: 2
Views: 2039

Re: How to spool graphe+ mesh data to anatomist from a script?

Thanks Denis! I'll try that out!
by PeterK
Tue May 26, 2009 4:44 pm
Forum: Anatomist
Topic: How to spool graphe+ mesh data to anatomist from a script?
Replies: 2
Views: 2039

How to spool graphe+ mesh data to anatomist from a script?

I hope there is a very simply solution to what I'm trying to do e.g. to replace the "Show Fold Graph Viewer" with a command-line interface. My issue is that our bvisa database is gargantual and this takes toll on just trying to do a quick view as there is a lot of database querying going o...
by PeterK
Tue May 19, 2009 7:30 pm
Forum: AIMS
Topic: VipBiasCorrection
Replies: 2
Views: 5043

Re: VipBiasCorrection

Thanks! I have to say that even after doing two or three times already I still can't meaningfully generalize on how these parameters affect the bias correction. However, permuting across the range of them and selecting the best setting does produce much nicer results than the default parameters, esp...
by PeterK
Tue May 19, 2009 7:21 pm
Forum: BrainVISA
Topic: FETAL BRAIN RECONSTRUCT
Replies: 5
Views: 2517

Re: FETAL BRAIN RECONSTRUCT

Peter, like often, you raised my curiosity, not only because of this MT sequence, but also managing to do something with our stuff with this data, while it is not the standard input. You did at least some kind of magic? Jeff Well, I trully wish I was gifted with any supernatural abilities. Unfortun...
by PeterK
Mon May 18, 2009 6:42 pm
Forum: BrainVISA
Topic: FETAL BRAIN RECONSTRUCT
Replies: 5
Views: 2517

Re: FETAL BRAIN RECONSTRUCT

It is somewhat hard to get a stable WM/GM contrast in the in-utero studies as the brain doesn't start to myelinate until parturition. The magnetization transfer imaging is the only stable way of getting good regional contrast in the unmyelinated brain that I know of. I had good luck with getting MTC...
by PeterK
Mon May 18, 2009 5:15 pm
Forum: AIMS
Topic: VipBiasCorrection
Replies: 2
Views: 5043

VipBiasCorrection

I wonder if there are any rules of thumb to optimize the bias correction parameters for a particular pattern of image contrast/artifacts? Specifically I'm interested on how Entropy, Regularization and Temperature should be optimized for volumetric (e.g. a central bias) versus phasearray (e.g. periph...
by PeterK
Mon Jun 23, 2008 8:04 pm
Forum: BrainVISA
Topic: BVisa plugins for GM thickness, gyrification, etc
Replies: 3
Views: 1676

Re: BVisa plugins for GM thickness, gyrification, etc

Thank you Sir!
by PeterK
Thu Jun 12, 2008 6:06 pm
Forum: BrainVISA
Topic: gyrification index
Replies: 5
Views: 2736

Re: gyrification index

Yes, it won't take us much time to redo the package for the new version. We just downloaded it today. Email me if you don't see it in a couple of weeks.
by PeterK
Thu Jun 12, 2008 4:01 pm
Forum: BrainVISA
Topic: If anyone needs nifti input/out functionality
Replies: 3
Views: 1711

Re: If anyone needs nifti input/out functionality

Hi, This could be useful for brainvisa 3.0, but the new 3.1 version available since yesterday also includes nifti support... Thanks anyway. Denis Darn it. Always late to teh party :oops: Not to mention that it won't even work in 3.1 version since the directory structures are different. Oh. well, we...
by PeterK
Thu Jun 12, 2008 3:59 pm
Forum: BrainVISA
Topic: gyrification index
Replies: 5
Views: 2736

Re: gyrification index

We have developed some tools to do it using basic BVisa functionality

http://ric.uthscsa.edu/personalpages/pe ... Index.html


Look at the posters to see the validation
http://ric.uthscsa.edu/personalpages/petr/genetics.html
by PeterK
Thu Jun 12, 2008 3:57 pm
Forum: BrainVISA
Topic: BVisa plugins for GM thickness, gyrification, etc
Replies: 3
Views: 1676

BVisa plugins for GM thickness, gyrification, etc

Hey guys,
Here are bvisa stuff we've been working on and decided to share.
Look at the posters to see how they were validated

http://ric.uthscsa.edu/personalpages/petr/genetics.html

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