Process Empirical SEEG data

[lala z]

Hello,

         I am now trying to use real SEEG data for fitting. I intercepted the SEEG data of seizures marked by clinicians，and then processed the SEEG data according to the methods provided by you, but the data used for fitting is different from yours, as shown in the following figure：

Is this correct? Maybe there are other requirements for using real SEEG data？

Thanks,

lala

[WOODMAN Michael]

hi,

There could be a seizure there but hard to say, we'd need to see the raw time series.  Unfortunately, please do not share figures of patient data on this public mailing list.  Please contact us privately for a quick call to see if there's a quick fix. 

cheers,

Marmaduke

---

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Sent: Thursday, June 23, 2022 4:31:50 AM
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Subject: [SUSPECTED SPAM] [TVB] Process Empirical SEEG data

 

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[lala z]

Hi,

I'm reading  FittingWorkflow_EmpiricalSEEGdata.ipynb in BVEP , I want to know  Where is vep.stan? I can't find this file:

lala

[meysam....@gmail.com]

Hi,

Thanks for the question. I have added the vep.stan in BVEP/SEEG directory.

Please note that this is the first generation of vep, and you can find the recently developed version in Stan directory such as BVEP2 (https://github.com/ins-amu/BVEP/blob/master/Stan/BVEP2_seeg_noncentered_reparam_stan_heun_patient1_NUTS.ipynb).

Best,

Meysam

[lala z]

Hello,

Thanks for your reply.

I am reading the files in BVEP/stan , I saw many models about BVEP in the Stan folder, but I found that they were somewhat different. so I have a few questions to ask for your help.

In BVEP/stan/BVEP1_seeg_noncentered_reparam.stan, the transformed parameters block is shown in the figure below:

but in BVEP/stan/BVEP_source_noncentered.stan, the transformed parameters block is:

1.  I don't know what eigen_vec is, why it is used in BVEP1_seeg_noncentered_reparam.stan?

2.  The initial values of these parameters are also  different. 

For example, K=Ks+0.1*K_star , Why multiply by 0.1？These parameters are different from those in pymc3 . offset=0.0+offset_star in BVEP_source_noncentered.stan,but offset=10+offset_star  in BVEP1_seeg_noncentered_reparam.stan .Are these parameter values adjusted by different data? so I don't quite understand it.

3. in BVEP1_seeg_noncentered_reparam.stan, the model block is shown in the figure below:

here  x[i, t+1] = x[i, t] + dt*dx，but in  BVEP_source_noncentered.stan, x[i, t+1] = x[i, t] + dt*dx +sqrt(dt)*x_eta[i, t]*sig. So, which method should I use？

If you can help me solve these puzzles, I will be very grateful！

lala

[lala z]

Hello,

In Fittingworkflow_EmpiricalSEEGdata.ipynb in BVEP, I can't find the report.py:

在2022年7月12日星期二 UTC+8 19:19:19<meysam....@gmail.com> 写道：