[Simnibs-discuss] manual correction

[w.tomasz at sensusmed.pl]

Hi Oula,

Thanks for your answers and suggestions.
1)If I understand correctly, the final headform in the B and B + ranges 
will be sufficient to calculate the optimal stimulation if I first check 
with Freesurfer for large deviations in bone and skin mapping ?

2)Is it possible to use software to calculate appropriate electrode 
placement for transcranial temporal interference stimulation?
Of course also to visualize the distribution of the electric field.
For example, for fields with a frequency of 200 and 210 Hz.
The area of interest is the L-amygdala.

Best regards,
Witold
W dniu 2020-08-19 13:36, Oula Puonti napisał(a):

> Hi Witold,
> 
> 1) When using CAT the cortical and white matter surfaces are not
> generated from the volume files (.nii.gz), but rather the surface
> files stored in the mask_prerp folder. Thus editing the volume files
> 
> will have no effect on the cortical or white matter surfaces in the
> final headmodel. You can, however, edit the CSF, skull, and scalp
> masks and these edits are propagated to the final head model.
> 
> If you want to edit the GM and WM masks, please disable CAT12
> (--no-cat flag). After that the edits on the WM and GM masks will also
> change the final headmodel.
> 
> 2) We have not studied this systematically, but in my experience CAT12
> does a good job even if the grade it assigns is B. That being said,
> you should still inspect the resulting segmentation for large errors
> using the
> 
> headreco check call.
> 
> 3 & 4) I'm not that experienced with manual edits and the little
> experience I have is limited to freeview. I've heard people
> succesfully using ITK snap, but if you find it too difficult, I would
> consider using freeview through the windows subsystem for linux. It's
> a bit trickier, but the instructions here are quite clear:
> 
> https://surfer.nmr.mgh.harvard.edu/fswiki/WindowsSupport
> 
> Best,
> Oula
> -------------------------
> 
> From: Simnibs-discuss <simnibs-discuss-bounces at drcmr.dk> on behalf of
> w.tomasz at sensusmed.pl <w.tomasz at sensusmed.pl>
> Sent: Tuesday, August 18, 2020 5:37:11 PM
> To: Guilherme B Saturnino
> Cc: discuss at simnibs.org
> Subject: [Simnibs-discuss] manual correction
> 
> Hello,
> 
> I had the pleasure of talking to you for a while at the April webinar
> on brain modeling after stroke.
> I am currently researching the use of stimulation in a person with
> tinnitus with personalized stimulation.
> I have a question about the manual correction of the brain model (the
> model created from the t1_mprage_sag and t2_space_dark_fluid_sag_p2
> images) in the automatic model creation in the CAT report gets results
> on the B and B + levels.
> I'm a beginner when it comes to modeling (I am more concerned with
> NIBS in clinical applications), sorry if my questions are trivial :
> 
> 1. on the SIMNIBS website, it says that it is not possible to do CAT
> cuttings, whether in such a system we use "m2m_ernie \ mask_prep \
> MASK_CAT_WM.nii.gz" or "m2m_ernie \ gm.nii.gz" for manual editing.
> Does a manual correction make sense in such a situation?
> 
> 2. From your and your team's experience, how big are the differences
> in electric field distributions between the B / B + and A-level
> models?
> 
> 3.I wanted to use ITK-SNAP for the correction proposed on one of your
> toutorials but I am a beginner I have a hard time figuring out how to
> check if (how exactly) the surface contours follow the tissue shapes
> in the T1w image, with more masks than one .
> 
> 4. Could you suggest a program other than FS to evaluate the created
> model? Since I'm a Windows 10 and FS user, it's more complicated here.
> 
> Thank you very much for your help and your time!
> Best regards,
> --
> 
> Witold Tomasz
> 
> psycholog, psychoterapeuta, terapeuta tDCS
> 
> Ośrodek psychoterapii i neurorehabilitacji
> 
> Sensusmed Witold Tomasz
> 
> p:
> 504288040  m: 789335047
> 
> a:
> Kraków 30-303
> 
> ul.Madalińskiego 3/1
> 
> w:
> www.sensusmed.pl [1] [1 [1]]  e: w.tomasz at sensusmed.pl
> 
> Links:
> ------
> [1] http://www.sensusmed.pl

-- 

  		Witold Tomasz

  psycholog, psychoterapeuta, terapeuta tDCS

  		Ośrodek psychoterapii i neurorehabilitacji

  		Sensusmed Witold Tomasz

  		p:
  		504288040  m: 789335047

  		a:
  		Kraków 30-303

  		ul.Madalińskiego 3/1

  		w:
  		www.sensusmed.pl [1]  e: w.tomasz at sensusmed.pl



Links:
------
[1] http://www.sensusmed.pl
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <https://mailman.drcmr.dk/pipermail/simnibs-discuss/attachments/20200828/64d8564f/attachment.html>