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: 329

329 Topics

1733 Posts

Last post Re: Using FInitializeHandler …
by pascal View the latest post
Fri Jul 12, 2019 12:23 pm
Reaction-diffusion in NEURON
Extending NEURON to handle reaction-diffusion problems.
Moderators: hines, wwlytton, ramcdougal
Topics: 38

38 Topics

171 Posts

Last post Re: basic questions on RxD
by adamjhn View the latest post
Mon Jul 08, 2019 10:35 am

Active topics

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Last post

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

21713 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

9999 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

14359 Views

Last post by wjbeaver
Wed Dec 22, 2010 4:38 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

126 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

1534 Views

Last post by adamjhn
Mon Jul 08, 2019 10:35 am
Modelling a channel with multiple markov states

Last post by adamjhn « Mon Jul 08, 2019 12:44 am
Replies: 4
by SurG » Sun Jul 07, 2019 1:58 am

4 Replies

175 Views

Last post by adamjhn
Mon Jul 08, 2019 12:44 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

6596 Views

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

Last post by alexandrapierri « Tue Jun 04, 2019 2:46 pm
Replies: 4
by alexandrapierri » Fri May 31, 2019 4:56 pm

4 Replies

261 Views

Last post by alexandrapierri
Tue Jun 04, 2019 2:46 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

361 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

432 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

340 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

482 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

7072 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

690 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

913 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

856 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

289 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

1456 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

794 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

440 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

322 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

8682 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

407 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

529 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

549 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

730 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

3659 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

582 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

453 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

1372 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

14790 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

817 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

787 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

814 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

1059 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

1113 Views

Last post by yiliu021
Tue Nov 27, 2018 1:41 pm
Reaction-Diffusion in HOC

Last post by Darshan « Sat Nov 17, 2018 2:28 am
Replies: 5
by ramcdougal » Fri Oct 27, 2017 10:09 am

5 Replies

17151 Views

Last post by Darshan
Sat Nov 17, 2018 2:28 am
maximum length for the name of a species?

Last post by Tuoma « Fri Nov 16, 2018 6:07 am
Replies: 2
by Tuoma » Wed Nov 14, 2018 10:59 am

2 Replies

783 Views

Last post by Tuoma
Fri Nov 16, 2018 6:07 am
undefined symbol: nrnmpi_myid

Last post by ted « Tue Sep 18, 2018 4:30 pm
Replies: 3
by aeronlaffere » Tue Sep 18, 2018 12:34 pm

3 Replies

1640 Views

Last post by ted
Tue Sep 18, 2018 4:30 pm
Add term to RxD solution.

Last post by ramcdougal « Fri Sep 14, 2018 10:59 am
Replies: 2
by ahmed.hamzah » Fri Sep 07, 2018 5:43 pm

2 Replies

1601 Views

Last post by ramcdougal
Fri Sep 14, 2018 10:59 am
Error in bash.exe

Last post by ted « Tue Sep 04, 2018 9:34 am
Replies: 1
by ahmed.hamzah » Fri Aug 31, 2018 2:55 pm

1 Replies

1274 Views

Last post by ted
Tue Sep 04, 2018 9:34 am
unload mechanisms dll

Last post by ted « Tue Sep 04, 2018 9:16 am
Replies: 1
by a.negrean » Thu Aug 30, 2018 11:06 am

1 Replies

1322 Views

Last post by ted
Tue Sep 04, 2018 9:16 am
How to Configure System Variables

Last post by ted « Tue Sep 04, 2018 9:15 am
Replies: 1
by ahmed.hamzah » Tue Aug 28, 2018 3:26 pm

1 Replies

1236 Views

Last post by ted
Tue Sep 04, 2018 9:15 am
RxD in Neuron

Last post by ahmed.hamzah « Mon Aug 27, 2018 7:55 pm
Replies: 3
by ahmed.hamzah » Fri Aug 24, 2018 5:08 pm

3 Replies

1628 Views

Last post by ahmed.hamzah
Mon Aug 27, 2018 7:55 pm
Not able to run simulation more than once from a NEURON+Python script

Last post by MarkoF « Wed Aug 22, 2018 10:47 am
Replies: 4
by MarkoF » Tue Aug 21, 2018 11:58 am

4 Replies

1728 Views

Last post by MarkoF
Wed Aug 22, 2018 10:47 am
Animation of synapse activation

Last post by rlindroos « Wed Aug 22, 2018 2:17 am
Replies: 4
by rlindroos » Fri Aug 17, 2018 7:31 am

4 Replies

1931 Views

Last post by rlindroos
Wed Aug 22, 2018 2:17 am
Neuron 7.5 + Python 3.7

Last post by Dradeliomecus « Tue Aug 07, 2018 9:28 am
Replies: 2
by Dradeliomecus » Tue Aug 07, 2018 4:06 am

2 Replies

2591 Views

Last post by Dradeliomecus
Tue Aug 07, 2018 9:28 am
different results from NEURON version 7.5 and NEURON version 7.4

Last post by adamjhn « Mon Jul 23, 2018 3:38 pm
Replies: 1
by yz398 » Mon Jul 23, 2018 2:29 pm

1 Replies

1067 Views

Last post by adamjhn
Mon Jul 23, 2018 3:38 pm
Manual Installation of NEURON Python module on Linux Mint 18

Last post by ted « Wed Jun 20, 2018 10:35 am
Replies: 7
by Darth_Malloc » Fri Jun 15, 2018 11:54 am

7 Replies

2558 Views

Last post by ted
Wed Jun 20, 2018 10:35 am
Neuron code

Last post by ahmed.hamzah « Wed Jun 13, 2018 3:20 pm
Replies: 20
by ahmed.hamzah » Thu Jun 07, 2018 8:29 pm
1

2
20 Replies

4556 Views

Last post by ahmed.hamzah
Wed Jun 13, 2018 3:20 pm

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