NEURON design

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NEURON + Python
When Python is the interpreter, what is a good
design for the interface to the basic NEURON
concepts.
Moderator: hines
Topics: 403

403 Topics

2048 Posts

Last post Re: problem instantiating a h…
by ted View the latest post
Sat Sep 18, 2021 1:08 am
Reaction-diffusion in NEURON
Extending NEURON to handle reaction-diffusion problems.
Moderators: hines, wwlytton, ramcdougal
Topics: 66

66 Topics

285 Posts

Last post Re: Using NEURON to model a s…
by Robert Claar View the latest post
Sat Aug 28, 2021 3:50 pm

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Use NEURON's native GUI tools with Python!

Last post by ted « Fri Sep 27, 2019 11:23 am
Replies: 2
by ted » Tue Aug 08, 2017 2:48 pm

2 Replies

14076 Views

Last post by ted
Fri Sep 27, 2019 11:23 am
More NEURON + Python documentation

Last post by ramcdougal « Wed Oct 24, 2018 7:07 am
Replies: 6
by ted » Mon Mar 24, 2008 10:17 am

6 Replies

26774 Views

Last post by ramcdougal
Wed Oct 24, 2018 7:07 am
More NEURON + Python resources

Last post by wjbeaver « Wed Dec 22, 2010 4:38 pm
Replies: 4
by mctavish » Wed Dec 01, 2010 3:13 pm

4 Replies

17966 Views

Last post by wjbeaver
Wed Dec 22, 2010 4:38 pm
problem instantiating a hoc template from python

Last post by ted « Sat Sep 18, 2021 1:08 am
Replies: 1
by alexandrapierri » Fri Sep 17, 2021 8:46 pm

1 Replies

14 Views

Last post by ted
Sat Sep 18, 2021 1:08 am
undefined symbol: nrnpython_start

Last post by Feanor « Fri Sep 17, 2021 10:57 am
Replies: 8
by Feanor » Mon Sep 13, 2021 4:25 pm

8 Replies

109 Views

Last post by Feanor
Fri Sep 17, 2021 10:57 am
Using NEURON to model a system of endocrine cells

Last post by Robert Claar « Sat Aug 28, 2021 3:50 pm
Replies: 3
by Robert Claar » Tue Jun 30, 2020 2:58 pm

3 Replies

911 Views

Last post by Robert Claar
Sat Aug 28, 2021 3:50 pm
Import3d tool via Jupyter

Last post by landoskape « Fri Aug 27, 2021 6:49 pm
Replies: 2
by landoskape » Thu Aug 12, 2021 11:37 am

2 Replies

142 Views

Last post by landoskape
Fri Aug 27, 2021 6:49 pm
Pass ._ref_concentration to pc.source_var()?

Last post by itaru « Tue Aug 03, 2021 3:55 am
Replies: 6
by itaru » Thu Jul 15, 2021 8:57 am

6 Replies

384 Views

Last post by itaru
Tue Aug 03, 2021 3:55 am
Preproducing updating PlotShape() figures in

Last post by ramcdougal « Wed Jul 28, 2021 6:11 am
Replies: 1
by RBJ » Wed Jul 28, 2021 5:54 am

1 Replies

160 Views

Last post by ramcdougal
Wed Jul 28, 2021 6:11 am
Exporting .ses from Linear Circuit Builder

Last post by ted « Thu Jul 22, 2021 1:41 pm
Replies: 1
by ckelley » Mon Jul 19, 2021 1:02 pm

1 Replies

150 Views

Last post by ted
Thu Jul 22, 2021 1:41 pm
RxD code performance

Last post by itaru « Tue Jul 06, 2021 7:05 pm

by itaru » Tue Jul 06, 2021 7:05 pm

0 Replies

106 Views

Last post by itaru
Tue Jul 06, 2021 7:05 pm
RxD with ParallelContext

Last post by itaru « Mon Jul 05, 2021 2:51 am
Replies: 3
by itaru » Sun Jun 27, 2021 4:08 am

3 Replies

144 Views

Last post by itaru
Mon Jul 05, 2021 2:51 am
Question about: example calcium wave

Last post by itaru « Thu Jul 01, 2021 1:09 am
Replies: 1
by itaru » Wed Jun 30, 2021 5:56 am

1 Replies

70 Views

Last post by itaru
Thu Jul 01, 2021 1:09 am
Using h.APCount with the extracellular mechanism

Last post by ted « Sat Jun 26, 2021 12:13 am
Replies: 1
by andrewq » Fri Jun 25, 2021 4:27 pm

1 Replies

151 Views

Last post by ted
Sat Jun 26, 2021 12:13 am
Why does this Python Hoc Cell Instantiation from Hoc with getattr() work after adding (morpho_path) behind.

Last post by watersun « Sun Jun 20, 2021 12:00 pm

by watersun » Sun Jun 20, 2021 12:00 pm

0 Replies

171 Views

Last post by watersun
Sun Jun 20, 2021 12:00 pm
hh.mod + Python + membrane potential at several points of the soma

Last post by ted « Thu Jun 10, 2021 9:40 am
Replies: 3
by smetens » Wed Jun 09, 2021 11:09 am

3 Replies

429 Views

Last post by ted
Thu Jun 10, 2021 9:40 am
silencing netstim during simulation.

Last post by alexandrapierri « Tue May 11, 2021 9:43 am
Replies: 2
by alexandrapierri » Mon May 10, 2021 9:51 pm

2 Replies

320 Views

Last post by alexandrapierri
Tue May 11, 2021 9:43 am
Correcting poor code design

Last post by ted « Mon May 03, 2021 4:05 pm
Replies: 3
by aliaped » Mon May 03, 2021 10:39 am

3 Replies

466 Views

Last post by ted
Mon May 03, 2021 4:05 pm
Glutamate in the synaptic cleft

Last post by adamjhn « Tue Apr 27, 2021 10:07 am
Replies: 1
by srmainz » Mon Apr 26, 2021 4:53 am

1 Replies

339 Views

Last post by adamjhn
Tue Apr 27, 2021 10:07 am
Assigning values to a mechanism over all sections in anatomically detailed model

Last post by aliaped « Mon Apr 26, 2021 10:25 am
Replies: 3
by aliaped » Mon Apr 12, 2021 10:30 am

3 Replies

444 Views

Last post by aliaped
Mon Apr 26, 2021 10:25 am
Simulation Setup when using a List of NetCons, VecStims and Exp2Syn for multiple spike train stimulation

Last post by ted « Thu Apr 15, 2021 5:41 pm
Replies: 3
by Liz_Stan_88 » Wed Apr 14, 2021 4:03 pm

3 Replies

612 Views

Last post by ted
Thu Apr 15, 2021 5:41 pm
Myelin modeling

Last post by ted « Wed Apr 14, 2021 11:54 am
Replies: 3
by OronKotler » Thu Mar 25, 2021 3:13 am

3 Replies

476 Views

Last post by ted
Wed Apr 14, 2021 11:54 am
Impulse Response for all locations

Last post by ted « Tue Apr 13, 2021 11:45 am
Replies: 1
by tmoldwin » Tue Apr 13, 2021 7:35 am

1 Replies

345 Views

Last post by ted
Tue Apr 13, 2021 11:45 am
initbatser.py

Last post by ted « Wed Mar 24, 2021 10:26 am
Replies: 3
by margo.k3008 » Tue Mar 23, 2021 1:44 pm

3 Replies

337 Views

Last post by ted
Wed Mar 24, 2021 10:26 am
Kernel dies in Jupyter notebook when attempting to import NEURON

Last post by ted « Thu Mar 18, 2021 12:06 pm
Replies: 3
by oitani » Mon Mar 15, 2021 5:57 pm

3 Replies

1114 Views

Last post by ted
Thu Mar 18, 2021 12:06 pm
hoc file is not a template

Last post by ted « Tue Mar 02, 2021 12:31 pm
Replies: 6
by alexandrapierri » Thu Feb 25, 2021 11:45 am

6 Replies

537 Views

Last post by ted
Tue Mar 02, 2021 12:31 pm
Running pde solver more than once

Last post by ramcdougal « Mon Mar 01, 2021 3:20 pm
Replies: 6
by ren » Mon Jun 19, 2017 4:56 am

6 Replies

11956 Views

Last post by ramcdougal
Mon Mar 01, 2021 3:20 pm
Update to __init__.py?

Last post by ramcdougal « Mon Mar 01, 2021 2:15 pm
Replies: 1
by cvaaga » Mon Mar 01, 2021 1:55 pm

1 Replies

309 Views

Last post by ramcdougal
Mon Mar 01, 2021 2:15 pm
Save data from a loop in data acquired from neuron

Last post by ted « Wed Feb 24, 2021 10:50 am
Replies: 1
by OronKotler » Wed Feb 24, 2021 8:51 am

1 Replies

272 Views

Last post by ted
Wed Feb 24, 2021 10:50 am
Mechanisms in nrnmech.dll do not seem to be loading in python script

Last post by ted « Wed Feb 10, 2021 9:59 am
Replies: 5
by Liz_Stan_88 » Tue Feb 09, 2021 11:22 am

5 Replies

705 Views

Last post by ted
Wed Feb 10, 2021 9:59 am
Record and fadvance instead of run

Last post by fkolbl « Thu Dec 31, 2020 11:23 am
Replies: 2
by fkolbl » Wed Dec 30, 2020 2:41 pm

2 Replies

582 Views

Last post by fkolbl
Thu Dec 31, 2020 11:23 am
Recording voltage across elements and using external stim Linear Circuit Builder

Last post by ted « Mon Nov 23, 2020 5:39 pm
Replies: 1
by ckelley » Fri Nov 20, 2020 3:28 pm

1 Replies

543 Views

Last post by ted
Mon Nov 23, 2020 5:39 pm
Modelling of subcellular signalling

Last post by ted « Wed Nov 18, 2020 10:42 pm
Replies: 1
by jofrony » Wed Nov 18, 2020 1:25 pm

1 Replies

438 Views

Last post by ted
Wed Nov 18, 2020 10:42 pm
Issue with larger and more equations in Reaction

Last post by adamjhn « Mon Nov 16, 2020 10:18 am
Replies: 1
by jetlim » Tue Oct 27, 2020 4:22 pm

1 Replies

671 Views

Last post by adamjhn
Mon Nov 16, 2020 10:18 am
Help measuring/plotting the cytoplasmic Ca flux (nM/s) as function of Ca concentration

Last post by ilariac « Wed Oct 14, 2020 4:00 am
Replies: 2
by ilariac » Mon Oct 12, 2020 3:47 am

2 Replies

636 Views

Last post by ilariac
Wed Oct 14, 2020 4:00 am
External Stimuli not working

Last post by ted « Fri Oct 02, 2020 11:25 am
Replies: 1
by gladonias » Mon Aug 17, 2020 6:38 am

1 Replies

1057 Views

Last post by ted
Fri Oct 02, 2020 11:25 am
implement Randles circuit in NEURON

Last post by breakwave922 « Wed Sep 30, 2020 2:36 pm
Replies: 3
by breakwave922 » Tue Sep 29, 2020 6:52 pm

3 Replies

739 Views

Last post by breakwave922
Wed Sep 30, 2020 2:36 pm
cell counting on an image with python

Last post by gladonias « Thu Sep 17, 2020 11:34 am
Replies: 4
by fpointeau » Mon Apr 13, 2020 11:54 am

4 Replies

2596 Views

Last post by gladonias
Thu Sep 17, 2020 11:34 am
Connect multiple cells using connection probabilities

Last post by gladonias « Thu Sep 17, 2020 11:26 am
Replies: 4
by ekkya » Sat Mar 03, 2018 10:15 am

4 Replies

4482 Views

Last post by gladonias
Thu Sep 17, 2020 11:26 am
Frequency dependent activation of g protein models

Last post by ted « Mon Sep 14, 2020 3:17 pm
Replies: 2
by jofrony » Tue Nov 12, 2019 6:20 am

2 Replies

3862 Views

Last post by ted
Mon Sep 14, 2020 3:17 pm
injecting continuous normally distributed noise in python

Last post by ted « Mon Sep 14, 2020 3:10 pm
Replies: 2
by thiank » Sun Aug 25, 2019 10:57 pm

2 Replies

1731 Views

Last post by ted
Mon Sep 14, 2020 3:10 pm
Netstim in automated repeating simulations

Last post by breakwave922 « Mon Sep 14, 2020 2:20 pm
Replies: 2
by breakwave922 » Sun Sep 13, 2020 12:52 am

2 Replies

706 Views

Last post by breakwave922
Mon Sep 14, 2020 2:20 pm
Multiple stimulation of POINT_PROCESS per run

Last post by ted « Tue Sep 08, 2020 5:07 pm
Replies: 3
by parent41 » Thu Aug 06, 2020 11:12 am

3 Replies

903 Views

Last post by ted
Tue Sep 08, 2020 5:07 pm
Ephaptic coupling of Axons

Last post by ted « Mon Aug 03, 2020 11:32 pm
Replies: 1
by subash774 » Mon Aug 03, 2020 4:50 pm

1 Replies

670 Views

Last post by ted
Mon Aug 03, 2020 11:32 pm
Is it possible to track "value explosions" and out of range errors

Last post by hines « Tue Jul 28, 2020 4:47 pm
Replies: 2
by duytanph » Thu Jul 23, 2020 9:43 pm

2 Replies

768 Views

Last post by hines
Tue Jul 28, 2020 4:47 pm
Modelling a chain of HH cell with myelinated axon

Last post by subash774 « Tue Jul 28, 2020 9:02 am
Replies: 16
by subash774 » Mon Jul 20, 2020 7:37 am
1

2
16 Replies

2606 Views

Last post by subash774
Tue Jul 28, 2020 9:02 am
color or color_list procedures in PlotShape

Last post by roybens « Tue Jul 21, 2020 12:40 pm
Replies: 5
by roybens » Mon Jul 06, 2020 4:58 pm

5 Replies

1231 Views

Last post by roybens
Tue Jul 21, 2020 12:40 pm
Does the usage of the Shape may affect mV readouts?

Last post by ziemek « Sat Jul 18, 2020 3:34 pm
Replies: 5
by ziemek » Mon Jun 29, 2020 6:29 am

5 Replies

1117 Views

Last post by ziemek
Sat Jul 18, 2020 3:34 pm
Connecting rxd to custom mechanism where custom mechanism models production/secretion

Last post by adamjhn « Tue Jul 14, 2020 9:12 am
Replies: 8
by tiki » Fri Jul 10, 2020 8:41 am

8 Replies

1422 Views

Last post by adamjhn
Tue Jul 14, 2020 9:12 am
Best practice to run hundreds of simulations / remove all objects between runs

Last post by ziemek « Sat Jul 11, 2020 6:13 am
Replies: 6
by ziemek » Thu Jul 09, 2020 9:16 am

6 Replies

1349 Views

Last post by ziemek
Sat Jul 11, 2020 6:13 am

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