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: 338

338 Topics

1762 Posts

Last post Re: Export to .hoc with CellB…
by vogdb View the latest post
Wed Sep 11, 2019 12:07 pm
Reaction-diffusion in NEURON
Extending NEURON to handle reaction-diffusion problems.
Moderators: hines, wwlytton, ramcdougal
Topics: 43

43 Topics

185 Posts

Last post Re: Using setpointer() and RX…
by adamjhn View the latest post
Tue Aug 27, 2019 11:48 am

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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

22281 Views

Last post by ramcdougal
Wed Oct 24, 2018 7:07 am
Use NEURON's native GUI tools with Python!

Last post by Mohamed_Hisham « Wed Aug 09, 2017 5:57 pm
Replies: 1
by ted » Tue Aug 08, 2017 2:48 pm

1 Replies

10274 Views

Last post by Mohamed_Hisham
Wed Aug 09, 2017 5:57 pm
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

14736 Views

Last post by wjbeaver
Wed Dec 22, 2010 4:38 pm
Export to .hoc with CellBuilder from Python

Last post by vogdb « Wed Sep 11, 2019 12:07 pm
Replies: 2
by vogdb » Tue Sep 10, 2019 12:32 pm

2 Replies

107 Views

Last post by vogdb
Wed Sep 11, 2019 12:07 pm
TypeError: sec is not a Section"

Last post by ted « Sat Sep 07, 2019 12:09 pm
Replies: 3
by alexandrapierri » Tue Sep 03, 2019 7:43 pm

3 Replies

168 Views

Last post by ted
Sat Sep 07, 2019 12:09 pm
Save model's biophysics and morphology programmatically to .hoc

Last post by vogdb « Wed Sep 04, 2019 6:42 am
Replies: 3
by vogdb » Tue Sep 03, 2019 11:25 am

3 Replies

170 Views

Last post by vogdb
Wed Sep 04, 2019 6:42 am
Control a simulation step by step

Last post by camilhamdane « Thu Aug 29, 2019 12:11 pm
Replies: 2
by camilhamdane » Wed Aug 28, 2019 1:29 pm

2 Replies

191 Views

Last post by camilhamdane
Thu Aug 29, 2019 12:11 pm
Using setpointer() and RXD concentrations

Last post by adamjhn « Tue Aug 27, 2019 11:48 am
Replies: 1
by amerg » Mon Aug 26, 2019 6:16 pm

1 Replies

179 Views

Last post by adamjhn
Tue Aug 27, 2019 11:48 am
Issue with Exp2Syn and stimulation of multiple dendrites

Last post by ted « Mon Aug 26, 2019 11:02 am
Replies: 3
by Liz_Stan_88 » Thu Aug 22, 2019 4:20 am

3 Replies

236 Views

Last post by ted
Mon Aug 26, 2019 11:02 am
injecting continuous normally distributed noise in python

Last post by thiank « Sun Aug 25, 2019 10:57 pm

by thiank » Sun Aug 25, 2019 10:57 pm

0 Replies

159 Views

Last post by thiank
Sun Aug 25, 2019 10:57 pm
Does Section have something like `id` attribute?

Last post by vogdb « Thu Aug 22, 2019 3:34 am
Replies: 2
by vogdb » Wed Aug 21, 2019 12:16 pm

2 Replies

192 Views

Last post by vogdb
Thu Aug 22, 2019 3:34 am
Using include_flux() properly

Last post by adamjhn « Wed Aug 21, 2019 4:43 pm
Replies: 1
by amerg » Tue Aug 20, 2019 8:42 pm

1 Replies

219 Views

Last post by adamjhn
Wed Aug 21, 2019 4:43 pm
Parameter and MultiCompartmentReaction Error

Last post by adamjhn « Thu Aug 15, 2019 5:25 pm
Replies: 1
by amerg » Thu Aug 01, 2019 3:42 pm

1 Replies

228 Views

Last post by adamjhn
Thu Aug 15, 2019 5:25 pm
Convert Python to Hoc

Last post by ted « Thu Aug 15, 2019 3:41 pm
Replies: 4
by vogdb » Wed Aug 14, 2019 2:24 pm

4 Replies

328 Views

Last post by ted
Thu Aug 15, 2019 3:41 pm
Modelling a channel with multiple markov states

Last post by SurG « Wed Aug 14, 2019 1:34 pm
Replies: 7
by SurG » Sun Jul 07, 2019 1:58 am

7 Replies

680 Views

Last post by SurG
Wed Aug 14, 2019 1:34 pm
decay reactions

Last post by adamjhn « Wed Aug 14, 2019 10:25 am
Replies: 1
by Tuoma » Wed Aug 14, 2019 5:14 am

1 Replies

179 Views

Last post by adamjhn
Wed Aug 14, 2019 10:25 am
DLL load failed & No module named hoc error

Last post by camilhamdane « Wed Aug 07, 2019 5:18 am
Replies: 2
by camilhamdane » Mon Aug 05, 2019 4:36 pm

2 Replies

262 Views

Last post by camilhamdane
Wed Aug 07, 2019 5:18 am
Altering Total Concentration During a Simulation

Last post by Darshan « Sun Aug 04, 2019 1:07 pm
Replies: 2
by amerg » Thu Aug 01, 2019 3:09 pm

2 Replies

284 Views

Last post by Darshan
Sun Aug 04, 2019 1:07 pm
Using FInitializeHandler to set initial voltages for a subset of cells

Last post by pascal « Fri Jul 12, 2019 12:23 pm
Replies: 2
by pascal » Thu Jul 11, 2019 7:24 pm

2 Replies

394 Views

Last post by pascal
Fri Jul 12, 2019 12:23 pm
basic questions on RxD

Last post by adamjhn « Mon Jul 08, 2019 10:35 am
Replies: 7
by Tuoma » Tue Apr 24, 2018 10:10 am

7 Replies

2043 Views

Last post by adamjhn
Mon Jul 08, 2019 10:35 am
Guidance on plotting cell's geometry in Python?

Last post by JustasB « Wed Jun 12, 2019 8:43 pm
Replies: 4
by dgalt » Fri May 20, 2016 12:02 pm

4 Replies

6954 Views

Last post by JustasB
Wed Jun 12, 2019 8:43 pm
'hoc.HocObject' object has no attribute 'instantiate'

Last post by ted « Tue Jun 04, 2019 1:55 pm
Replies: 3
by alexandrapierri » Fri May 31, 2019 4:56 pm

3 Replies

513 Views

Last post by ted
Tue Jun 04, 2019 1:55 pm
Adex neuron in neuron python

Last post by anandhupresannan « Fri May 24, 2019 1:57 am
Replies: 5
by anandhupresannan » Sat May 18, 2019 6:25 am

5 Replies

696 Views

Last post by anandhupresannan
Fri May 24, 2019 1:57 am
Turn off print messages in NEURON

Last post by rgerkin « Thu May 09, 2019 11:32 am
Replies: 2
by rgerkin » Wed May 08, 2019 8:05 pm

2 Replies

690 Views

Last post by rgerkin
Thu May 09, 2019 11:32 am
NEURON with Python code - Error related to FUNCTION_TABLE

Last post by ted « Wed May 08, 2019 3:45 pm
Replies: 3
by SaiNitin » Mon May 06, 2019 6:56 am

3 Replies

600 Views

Last post by ted
Wed May 08, 2019 3:45 pm
Questions about Calcium Waves in RxD

Last post by yuzhou « Tue May 07, 2019 8:55 pm
Replies: 2
by yuzhou » Fri May 03, 2019 10:35 am

2 Replies

693 Views

Last post by yuzhou
Tue May 07, 2019 8:55 pm
Delete a section does not work

Last post by ted « Thu Apr 25, 2019 10:16 am
Replies: 14
by mattions » Wed Jan 28, 2009 8:24 am

14 Replies

7648 Views

Last post by ted
Thu Apr 25, 2019 10:16 am
Reactions only when concentration above a certain limit?

Last post by adamjhn « Mon Mar 18, 2019 11:24 am
Replies: 1
by bremen » Sat Mar 16, 2019 12:06 pm

1 Replies

878 Views

Last post by adamjhn
Mon Mar 18, 2019 11:24 am
How to use a fixed time-step in Python?

Last post by Yaeger « Fri Mar 15, 2019 6:20 pm
Replies: 2
by Yaeger » Thu Mar 14, 2019 5:59 pm

2 Replies

1197 Views

Last post by Yaeger
Fri Mar 15, 2019 6:20 pm
BioPhysical properties of imported morphology in Python

Last post by ted « Tue Mar 12, 2019 10:57 am
Replies: 9
by sohaib786 » Tue Mar 05, 2019 9:16 am

9 Replies

1299 Views

Last post by ted
Tue Mar 12, 2019 10:57 am
Connect a custom spikegenerator instead of NetSim

Last post by ted « Thu Mar 07, 2019 11:52 am
Replies: 1
by anandhupresannan » Thu Mar 07, 2019 5:11 am

1 Replies

476 Views

Last post by ted
Thu Mar 07, 2019 11:52 am
Errors importing neuron

Last post by hines « Wed Mar 06, 2019 4:36 pm
Replies: 17
by bll5z6 » Tue Feb 26, 2019 3:43 pm
1

2
17 Replies

2377 Views

Last post by hines
Wed Mar 06, 2019 4:36 pm
diffusion intracellular->extracellular->intracellular

Last post by bremen « Sun Mar 03, 2019 8:17 am
Replies: 7
by bremen » Thu Feb 07, 2019 11:25 am

7 Replies

1205 Views

Last post by bremen
Sun Mar 03, 2019 8:17 am
USEION in mod files for RxD species I created

Last post by ted « Fri Mar 01, 2019 5:52 pm
Replies: 3
by bschneiders » Fri Mar 01, 2019 9:48 am

3 Replies

694 Views

Last post by ted
Fri Mar 01, 2019 5:52 pm
Rset or reboot neuron without exist in python

Last post by ted « Thu Feb 28, 2019 11:34 am
Replies: 1
by anandhupresannan » Wed Feb 27, 2019 1:14 am

1 Replies

498 Views

Last post by ted
Thu Feb 28, 2019 11:34 am
Driving synaptic event using vecStim

Last post by zyc « Wed Feb 20, 2019 1:17 am
Replies: 21
by mattions » Thu Dec 09, 2010 5:49 pm
1

2
21 Replies

9682 Views

Last post by zyc
Wed Feb 20, 2019 1:17 am
RXD lower concentration limit?

Last post by RBJ « Mon Feb 18, 2019 5:13 pm
Replies: 2
by RBJ » Sat Feb 16, 2019 6:29 am

2 Replies

612 Views

Last post by RBJ
Mon Feb 18, 2019 5:13 pm
Optimizing single cells programmatically

Last post by ted « Mon Feb 11, 2019 2:32 pm
Replies: 3
by bll5z6 » Thu Feb 07, 2019 1:24 pm

3 Replies

808 Views

Last post by ted
Mon Feb 11, 2019 2:32 pm
Unexpected 3D behaviour

Last post by RBJ « Mon Feb 04, 2019 4:19 pm
Replies: 2
by RBJ » Thu Jan 31, 2019 3:24 pm

2 Replies

767 Views

Last post by RBJ
Mon Feb 04, 2019 4:19 pm
3D Dimensional RXD/CRXD

Last post by RBJ « Thu Jan 31, 2019 2:59 pm
Replies: 4
by RBJ » Fri Jan 25, 2019 2:51 pm

4 Replies

1023 Views

Last post by RBJ
Thu Jan 31, 2019 2:59 pm
how to delete a Point Process object

Last post by hines « Mon Jan 28, 2019 4:46 pm
Replies: 11
by oren » Wed Jul 23, 2014 6:29 pm

11 Replies

4118 Views

Last post by hines
Mon Jan 28, 2019 4:46 pm
Different reaction rates in different sections

Last post by RBJ « Tue Jan 22, 2019 11:00 am
Replies: 3
by RBJ » Mon Jan 21, 2019 8:20 am

3 Replies

791 Views

Last post by RBJ
Tue Jan 22, 2019 11:00 am
updating Species and Rates inputs

Last post by bschneiders « Fri Jan 18, 2019 3:08 pm
Replies: 2
by bschneiders » Wed Jan 16, 2019 2:41 pm

2 Replies

649 Views

Last post by bschneiders
Fri Jan 18, 2019 3:08 pm
How can python read from a hoc file templates and procs?

Last post by ted « Thu Jan 10, 2019 5:12 pm
Replies: 7
by alexandrapierri » Fri Dec 21, 2018 6:01 pm

7 Replies

1796 Views

Last post by ted
Thu Jan 10, 2019 5:12 pm
Compling Problem

Last post by hines « Sat Dec 22, 2018 1:10 pm
Replies: 21
by neurite » Thu Jun 28, 2007 5:04 pm
1

2
21 Replies

15772 Views

Last post by hines
Sat Dec 22, 2018 1:10 pm
Strange NEURON behavior with multithreading

Last post by rth « Tue Dec 11, 2018 11:53 am

by rth » Tue Dec 11, 2018 11:53 am

0 Replies

1031 Views

Last post by rth
Tue Dec 11, 2018 11:53 am
Error running NEURON with embedded Python

Last post by ttarnaud « Fri Dec 07, 2018 10:56 am

by ttarnaud » Fri Dec 07, 2018 10:56 am

0 Replies

973 Views

Last post by ttarnaud
Fri Dec 07, 2018 10:56 am
Using VecStim() with CVode on

Last post by ted « Tue Dec 04, 2018 10:59 am
Replies: 3
by MarkoF » Tue Dec 04, 2018 6:20 am

3 Replies

1073 Views

Last post by ted
Tue Dec 04, 2018 10:59 am
Nested for loops over SectionList objects

Last post by selfdestructo « Fri Nov 30, 2018 8:59 am
Replies: 5
by selfdestructo » Tue Nov 27, 2018 8:00 am

5 Replies

1433 Views

Last post by selfdestructo
Fri Nov 30, 2018 8:59 am
Accessing inf_hh and tau_hh in the hh mechanism

Last post by yiliu021 « Tue Nov 27, 2018 1:41 pm
Replies: 6
by yiliu021 » Mon Nov 26, 2018 2:48 pm

6 Replies

1473 Views

Last post by yiliu021
Tue Nov 27, 2018 1:41 pm

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