Search found 8 matches

by Aman_Aberra
Tue Mar 24, 2020 4:26 pm
Forum: Other questions
Topic: Importing stimulus waveforms
Replies: 3
Views: 940

Re: Importing stimulus waveforms

How different is "different"? Major qualitative difference, or just a noticeable quantitative difference while overall time course is preserved? More the latter, probably <5% difference in most cases I looked at. Do the recorded data consist of a single stream of values (samples of the measured var...
by Aman_Aberra
Tue Mar 24, 2020 10:20 am
Forum: Other questions
Topic: Importing stimulus waveforms
Replies: 3
Views: 940

Importing stimulus waveforms

Hi, I've been simulating various transcranial magnetic stimulation (TMS) waveforms for extracellular stimulation in NEURON using the xtra.mod file approach written by Ted. Typically, I down-sample a recorded waveform to the time step of my simulation (e.g. 1 µs or 5 µs) in Matlab, and then I use vec...
by Aman_Aberra
Wed Jul 20, 2016 10:37 am
Forum: Anatomically detailed models
Topic: Adding myelin to realistic morphology
Replies: 4
Views: 7564

Re: Adding myelin to realistic morphology

I'm mostly working with the Blue Brain cell models right now, which are written in templates, so the first approach isn't ideal, but the second one I think could work. I'm also primarily using extracellular stimulation, and bifurcations are a site of depolarization, so I'm worried this might change ...
by Aman_Aberra
Mon Jul 18, 2016 1:59 pm
Forum: Anatomically detailed models
Topic: Adding myelin to realistic morphology
Replies: 4
Views: 7564

Re: Adding myelin to realistic morphology

Okay, that's what I intended to do with the 3rd approach. I think what I'll have to do is save the pt3d coordinates of regions I want to myelinate in vectors, then disconnect/delete these sections from their parent and child sections, create a new myelinated internodal section and a nodal section an...
by Aman_Aberra
Mon Jul 18, 2016 10:27 am
Forum: Anatomically detailed models
Topic: Adding myelin to realistic morphology
Replies: 4
Views: 7564

Adding myelin to realistic morphology

Hello, I'm working with cortical cell models with realistic morphologies that include the axon and its collaterals, and I'm applying extracellular stimulation via e_extracellular (using the xtra mechanism written by Ted). As is, the cell models are unmyelinated, but I'd like to add myelin to their e...
by Aman_Aberra
Thu Jun 09, 2016 4:45 pm
Forum: Other questions
Topic: Calculating steady state transfer impedance
Replies: 5
Views: 3382

Re: Calculating steady state transfer impedance

I see, I thought when they said they measured the "resulting (passive) steady-state voltage change..." that meant removing the active conductances from the model. I tried just doing their same simulation by injecting a 0.01 nA current in the soma for 100 ms and calculating the impedance of each comp...
by Aman_Aberra
Thu Jun 09, 2016 1:25 pm
Forum: Other questions
Topic: Calculating steady state transfer impedance
Replies: 5
Views: 3382

Re: Calculating steady state transfer impedance

Thanks for the reply. It looks like the images didn't attach correctly, here are the links: My results: http://imgur.com/lIuT1Sf Mainen figure: http://imgur.com/r24TR7J I got essentially the opposite trend from the paper, with the largest cell, the L5 pyramidal cell, possessing the lowest transfer i...
by Aman_Aberra
Wed Jun 08, 2016 2:36 pm
Forum: Other questions
Topic: Calculating steady state transfer impedance
Replies: 5
Views: 3382

Calculating steady state transfer impedance

Hi, I want to use NEURON's Impedance class to calculate steady state transfer impedances from every dendritic or axonal compartment to the soma for a number of cell models. To make sure I'm doing this correctly, I wanted to generate plots identical to the histograms of transfer impedance in Fig. 4 o...