From gian-marco.DUMA at univ-amu.fr Tue Oct 5 16:43:03 2021 From: gian-marco.DUMA at univ-amu.fr (DUMA Gian marco) Date: Tue, 5 Oct 2021 14:43:03 +0000 Subject: [Simnibs-discuss] SIMNIBS optimization with Temporal Interference Message-ID: Dear SimNIBS experts, as you probably understood from the previous email we are trying to implement TI simulation exploiting the great work you did with the SIMNIBS toolbox. At the moment we have been able to introduce the oscillatory component by following the formula of the field you inserted in FAQ for the TACS namely E(t)=E0*sin*(2*pi*(f/t)). We computed that for the tetdata and the tridata, and we modified a bit the get_matTI function to include the time dimension. We obtain a sinusoidal modulation of the field and the TI looks ok. But let me ask you, does it sound correct to you? Now our problem is to understand how to compute the best electrodes configuration to target a specific region with TI. We understood how to do that with the calculation of the leadfield and the tdcs_optimize, but it works only for the tdcs. Which approach would you suggest to try to solve our problem with the TI? We thought: 'oh, maybe we could generate in some way a leadfield taking into account not the stimulation of each single electrodes but only two couple of electrodes', but what we need is the electric field derived from the TI envelope. Therefore my thought 'ok, may we could just iterate the computation of the TI for each possible of the 4 electrodes configuration. Then we select in a specific region the electric field value, and we compare it across the multiple configuration and in order to see which is the generating the strongest field in the target region'. But actually we are not certain of which could be the best and most appropriate approach. What would you suggest us to do? Do you ever try to implement the leadfield and optimization approach to target a certain region with TI? If you have some code, or some approach you already tried, even if it is raw or temporary, please do not hesitate to share it. We can try to work on that and if we succeed we can make it public for everyone. Thanks for your help Gian Marco Duma -------------- next part -------------- An HTML attachment was scrubbed... URL: From matthias.mittner at uit.no Mon Oct 11 16:20:42 2021 From: matthias.mittner at uit.no (Matthias Mittner) Date: Mon, 11 Oct 2021 14:20:42 +0000 Subject: [Simnibs-discuss] Optimize for full ROI? Message-ID: <81B845E9-3A49-4C2B-A26A-9B10D7C04394@contoso.com> Hi, Is it possible to optimize the overlap of the Enorm with a ROI instead of a single target coordinate? The tutorial at https://simnibs.github.io/simnibs/build/html/tutorial/tms_optimization.html only seems to mention individual target coordinates. I am thinking about a TMS protocol but tDCS would also be interesting. Best, Matthias -------------- next part -------------- An HTML attachment was scrubbed... URL: From bichengpcb at 163.com Sat Oct 16 19:39:56 2021 From: bichengpcb at 163.com (bichengpcb at 163.com) Date: Sun, 17 Oct 2021 01:39:56 +0800 Subject: [Simnibs-discuss] Our Driving Circuit Boards Capabilities 2021 In-Reply-To: <2021100017013900560724@cnmlg.hfkdsj.com> Message-ID: <2021100017013900560724@cnmlg.hfkdsj.com> Kappa 438 High Frequency PCB Hi, Hope this email finds you well. This RF PCB has FR-4 matched dielectric constant (Dk). The design transition to this PCB will be effortless. Kappa 438 PCB FR-4 was historically a material choice for many less demanding RF applications, but changes in the wireless infrastructure related to growing performance requirements, especially in small cells and carrier-grade Wi-Fi. 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Best regards Jane Shi | Business development Bicheng PCB | www.highfrequencypcb.com | Material partners: Rogers, Taconic, ITEQ, SHENGYI, TAIYO, KUANGSHUN If you do not want to receive emails from Bicheng about marketing communications and special offers, reply as ?remove? in the subject line. -------------- next part -------------- An HTML attachment was scrubbed... URL: From Morgan.Thienpont at UGent.be Thu Oct 14 11:32:44 2021 From: Morgan.Thienpont at UGent.be (Morgan Thienpont) Date: Thu, 14 Oct 2021 09:32:44 +0000 Subject: [Simnibs-discuss] HPC Message-ID: Dear I have a question. Would it be possible to use Headreco on a HPC. This because otherwise it takes a really long time to get the m2m data for a lot of people. Kind regards Morgan Thienpont -------------- next part -------------- An HTML attachment was scrubbed... URL: From s.beumer at tue.nl Mon Oct 18 20:06:55 2021 From: s.beumer at tue.nl (Beumer, Steven) Date: Mon, 18 Oct 2021 18:06:55 +0000 Subject: [Simnibs-discuss] Making models with burr holes Message-ID: Dear community, First of all, thank you for answering all the questions that we have about SimNibs. We were curious if anyone had tried to do simulations with burr holes in SimNibs, as been done in commercial software (Measurements and models of electric fields in the in vivo human brain during transcranial electric stimulation. Y. Huang et. Al.). If so, I would be interested in how the modeling was done and if there were any tips on it. Thanks in advance! Sincerely, Steven Beumer MSc [TUe-logo-descriptor-line-scarlet-rgb] PhD at the electrical engineering faculty -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: image001.png Type: image/png Size: 11286 bytes Desc: image001.png URL: From fang.cao at regionh.dk Tue Oct 19 14:23:20 2021 From: fang.cao at regionh.dk (Fang Cao) Date: Tue, 19 Oct 2021 12:23:20 +0000 Subject: [Simnibs-discuss] Making models with burr holes In-Reply-To: References: Message-ID: Dear Steven, I do not know what you want to do with the simulation, but to simply answer your question, yes, we have done simulations of burr holes in vivo human brain with SimNIBS, but it needs some extra coding to create burr holes on the skull. For our purpose, we have done two different ways of simulation: 1. Start with the labeled image "m2m_/label_prep/tissue_labeling_upsampled.nii.gz". We create the burrholes in the labeled image by relabeling the indices of the voxels that we want to label as burrholes, and then mesh it with Simnibs. 2. Start with the mesh file (*.msh). We create burr holes in the mesh file directly by changing the tags of the tetrahedra that we want to set as burr holes, then run the simulations. Both ways can be done, and which way to go depends on what you want to do and how you want to do it. I hope it makes sense. Best regards, Fang ________________________________ From: Simnibs-discuss on behalf of Beumer, Steven Sent: Monday, 18 October 2021 20.06 To: simnibs-discuss at drcmr.dk Subject: [Simnibs-discuss] Making models with burr holes Dear community, First of all, thank you for answering all the questions that we have about SimNibs. We were curious if anyone had tried to do simulations with burr holes in SimNibs, as been done in commercial software (Measurements and models of electric fields in the in vivo human brain during transcranial electric stimulation. Y. Huang et. Al.). If so, I would be interested in how the modeling was done and if there were any tips on it. Thanks in advance! Sincerely, Steven Beumer MSc [TUe-logo-descriptor-line-scarlet-rgb] PhD at the electrical engineering faculty ________________________________ Region Hovedstaden anvender de personoplysninger, du giver os i forbindelse med din henvendelse. Du kan laese mere om form?let med anvendelsen samt dine rettigheder p? vores hjemmeside: www.regionh.dk/persondatapolitik -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: image001.png Type: image/png Size: 11286 bytes Desc: image001.png URL: From fang.cao at regionh.dk Tue Oct 19 14:37:40 2021 From: fang.cao at regionh.dk (Fang Cao) Date: Tue, 19 Oct 2021 12:37:40 +0000 Subject: [Simnibs-discuss] Making models with burr holes In-Reply-To: References: Message-ID: Dear Steven, On top of my last email, we recommend that you start with the option 2, so create the burr holes with mesh files directly. Option 1 is not available with the current version of SimNIBS. I am sorry for the confusion, but we are working on it now, and hopefully we will release the new version of SimNIBS next year so you could try option 1 too. Best of luck, Fang ________________________________ From: Simnibs-discuss on behalf of Fang Cao Sent: Tuesday, 19 October 2021 14.23 To: Beumer, Steven ; simnibs-discuss at drcmr.dk Subject: Re: [Simnibs-discuss] Making models with burr holes Dear Steven, I do not know what you want to do with the simulation, but to simply answer your question, yes, we have done simulations of burr holes in vivo human brain with SimNIBS, but it needs some extra coding to create burr holes on the skull. For our purpose, we have done two different ways of simulation: 1. Start with the labeled image "m2m_/label_prep/tissue_labeling_upsampled.nii.gz". We create the burrholes in the labeled image by relabeling the indices of the voxels that we want to label as burrholes, and then mesh it with Simnibs. 2. Start with the mesh file (*.msh). We create burr holes in the mesh file directly by changing the tags of the tetrahedra that we want to set as burr holes, then run the simulations. Both ways can be done, and which way to go depends on what you want to do and how you want to do it. I hope it makes sense. Best regards, Fang ________________________________ From: Simnibs-discuss on behalf of Beumer, Steven Sent: Monday, 18 October 2021 20.06 To: simnibs-discuss at drcmr.dk Subject: [Simnibs-discuss] Making models with burr holes Dear community, First of all, thank you for answering all the questions that we have about SimNibs. We were curious if anyone had tried to do simulations with burr holes in SimNibs, as been done in commercial software (Measurements and models of electric fields in the in vivo human brain during transcranial electric stimulation. Y. Huang et. Al.). If so, I would be interested in how the modeling was done and if there were any tips on it. Thanks in advance! Sincerely, Steven Beumer MSc [TUe-logo-descriptor-line-scarlet-rgb] PhD at the electrical engineering faculty ________________________________ Region Hovedstaden anvender de personoplysninger, du giver os i forbindelse med din henvendelse. Du kan l?se mere om form?let med anvendelsen samt dine rettigheder p? vores hjemmeside: www.regionh.dk/persondatapolitik ________________________________ Region Hovedstaden anvender de personoplysninger, du giver os i forbindelse med din henvendelse. Du kan l?se mere om form?let med anvendelsen samt dine rettigheder p? vores hjemmeside: www.regionh.dk/persondatapolitik -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: image001.png Type: image/png Size: 11286 bytes Desc: image001.png URL: From kristofferm at drcmr.dk Tue Oct 26 11:49:04 2021 From: kristofferm at drcmr.dk (Kristoffer Madsen) Date: Tue, 26 Oct 2021 11:49:04 +0200 Subject: [Simnibs-discuss] Optimize for full ROI? In-Reply-To: <81B845E9-3A49-4C2B-A26A-9B10D7C04394@contoso.com> References: <81B845E9-3A49-4C2B-A26A-9B10D7C04394@contoso.com> Message-ID: Hi Matthias, thank you for your interest in simNIBS and sorry about the late reply. Due to the physical constraints optimization of single points will actually affect a quite large area, typically there is a tradeoff between focality and maximum achieved field strength, which will already be embodied in the optimization. We would generally suggest splitting the optimization into individual points (only really relevant if the region is quite large) rather than using network optimization feature as it the network optimization feature ( https://simnibs.github.io/simnibs/build/html/tutorial/advanced/tdcs_distributed_opt.html) as that can be somewhat counterintuitive and difficult to control - and also enforces positive negative fields rather than the norm. Best, Kristoffer On Mon, 11 Oct 2021 at 18:47, Matthias Mittner wrote: > Hi, > > > > Is it possible to optimize the overlap of the Enorm with a ROI instead of > a single target coordinate? The tutorial at > https://simnibs.github.io/simnibs/build/html/tutorial/tms_optimization.html > only seems to mention individual target coordinates. > > I am thinking about a TMS protocol but tDCS would also be interesting. > > > > Best, > > > > Matthias > > > _______________________________________________ > Simnibs-discuss mailing list > Simnibs-discuss at drcmr.dk > https://mailman.drcmr.dk/mailman/listinfo/simnibs-discuss > -------------- next part -------------- An HTML attachment was scrubbed... URL: