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<p>Hi Steffen,</p>
<p>neuroConstruct could be helpful for some parts of your study, but unfortunately not all. It should be good for developing models in 3D of the network, either imported from neuronal reconstructions, or "manually" (and unfortunately slightly tediously) with
abstract cells built section by section in the GUI; it should allow you to add channel distributions to the cells to create spiking models; can help you generate code in Neuron (and other simulators, but I'd target this one) for running simulations, and you
can view/analyse the activity back in nC. <br>
</p>
<p>It won't help you with any other types of 3D interaction of the network with physical entities, and unless there is an existing example of the cell you would like in neuroConstruct (unlikely) or even Neuron (check on
<a moz-do-not-send="true" href="https://senselab.med.yale.edu/ModelDB/default.cshtml">
ModelDB</a>) it might be a slow process to create the network. Nevertheless it should be possible, see here for more instructions:
<a class="moz-txt-link-freetext" href="http://www.neuroconstruct.org/docs/importneuron.html">
http://www.neuroconstruct.org/docs/importneuron.html</a></p>
<p>What I'd recommend is assembling any model code you can find out there for the various pieces you need and maybe making Python the language to tie these together. There are scripting interfaces for most simulators in Python, and if you do want to make the
core network simulator independent, you could express it in NeuroML using the Python API
<a moz-do-not-send="true" href="https://github.com/NeuralEnsemble/libNeuroML">libNeuroML</a>. Once it's in NeuroML this will enable the model to be displayed (and simulated) on Open Source Brain (for more advice on this see
<a moz-do-not-send="true" href="http://www.opensourcebrain.org/docs#Converting_To_NeuroML2">
here</a>). OSB these days replicates much of the functionality of the desktop based neuroConstruct...<br>
</p>
<p>Hope this helps,</p>
<p>Regards,</p>
<p>Padraig<br>
</p>
<p><br>
</p>
<div class="moz-cite-prefix">On 11/02/2019 16:36, Steffen De Vreese wrote:<br>
</div>
<blockquote type="cite" cite="mid:CAPRxwd40trrO34gn0WwoZmkHTMyCU0VZKjjYeA8xn9fgqL2ynQ@mail.gmail.com">
<div dir="ltr">
<div>Dear Mr. Gleeson,<br>
</div>
<div><br>
</div>
<div>My name is Steffen, I am a Ph.D. student in Veterinary and Marine Sciences, and I study the peripheral nervous system of dolphins, with a focus on the external ear canal. Surrounding this canal, there is a very complex network of mechanoreceptors, nerves
and free endings. I am considering NeuroConstruct as a possible useful application to study this network, but I cannot seem to find any similar study in the literature/online.</div>
<div>Could you please give some more information on whether NeuroConstruct could be useful in this regard? If you please, I can give more information on the system I am studying.<br>
</div>
<div><br>
</div>
<div>With kind regards,</div>
<div>Steffen<br>
</div>
<div><br>
</div>
<div>
<div dir="ltr" class="gmail_signature" data-smartmail="gmail_signature">
<div dir="ltr">
<div>
<div dir="ltr">
<div>
<div dir="ltr">-- <br>
Steffen De Vreese, MVM, Doctoral candidate<br>
Dipartimento di Biomedicina Comparata e Alimentazione (BCA) - Università degli Studi di Padova (It)<br>
Laboratori d'Aplicacions Bioacústiques (LAB) - Universitat Politécnica de Catalunya (Es)<br>
<a href="mailto:steffen.devreese@studenti.unipd.it" target="_blank" moz-do-not-send="true">steffen.devreese@studenti.unipd.it</a><br>
<a href="mailto:steffen.devreese@lab.upc.edu" target="_blank" moz-do-not-send="true">steffen.devreese@lab.upc.edu</a><br>
Linkedin.com/in/steffen-de-vreese-033a5994</div>
<div dir="ltr">Researchgate.net/profile/Steffen_De_Vreese</div>
<div>Skype: devreesesteffen<br>
</div>
</div>
</div>
</div>
</div>
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<br>
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<pre class="moz-quote-pre" wrap="">_______________________________________________
neuroConstruct mailing list
<a class="moz-txt-link-abbreviated" href="mailto:neuroConstruct@ucl.ac.uk">neuroConstruct@ucl.ac.uk</a>
<a class="moz-txt-link-freetext" href="http://www.mailinglists.ucl.ac.uk/mailman/listinfo/neuroconstruct">http://www.mailinglists.ucl.ac.uk/mailman/listinfo/neuroconstruct</a>
Please note that the neuroConstruct mailing list is publicly archived</pre>
</blockquote>
<pre class="moz-signature" cols="72">--
-----------------------------------------------------
Padraig Gleeson
Room 321, Anatomy Building
Department of Neuroscience, Physiology& Pharmacology
University College London
Gower Street
London WC1E 6BT
United Kingdom
+44 207 679 3214
<a class="moz-txt-link-abbreviated" href="mailto:p.gleeson@ucl.ac.uk">p.gleeson@ucl.ac.uk</a>
-----------------------------------------------------</pre>
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