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: 419

419 Topics

2116 Posts

Last post Re: POINTER is not thread safe
by ted View the latest post
Thu Aug 11, 2022 9:58 pm
Reaction-diffusion in NEURON
Extending NEURON to handle reaction-diffusion problems.
Moderators: hines, wwlytton, ramcdougal
Topics: 73

73 Topics

312 Posts

Last post Re: rxd.Reaction(...) causes …
by neuron121! View the latest post
Wed Jul 27, 2022 1:06 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

15225 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

27906 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

18654 Views

Last post by wjbeaver
Wed Dec 22, 2010 4:38 pm
POINTER is not thread safe

Last post by ted « Thu Aug 11, 2022 9:58 pm
Replies: 6
by alexandrapierri » Fri Aug 05, 2022 10:27 pm

6 Replies

178 Views

Last post by ted
Thu Aug 11, 2022 9:58 pm
Accessing Pointers instantiated through Python

Last post by oitani « Wed Aug 10, 2022 1:12 pm

by oitani » Wed Aug 10, 2022 1:12 pm

0 Replies

38 Views

Last post by oitani
Wed Aug 10, 2022 1:12 pm
mechanisms written in python?

Last post by ted « Wed Aug 03, 2022 2:34 pm
Replies: 5
by alexandrapierri » Mon Aug 01, 2022 9:24 pm

5 Replies

104 Views

Last post by ted
Wed Aug 03, 2022 2:34 pm
Recording synaptic currents

Last post by alexandrapierri « Wed Jul 27, 2022 6:16 pm
Replies: 4
by alexandrapierri » Mon Jul 25, 2022 1:34 pm

4 Replies

158 Views

Last post by alexandrapierri
Wed Jul 27, 2022 6:16 pm
rxd.Reaction(...) causes finitialize to not work

Last post by neuron121! « Wed Jul 27, 2022 1:06 pm
Replies: 1
by neuron121! » Mon Jul 25, 2022 7:53 pm

1 Replies

80 Views

Last post by neuron121!
Wed Jul 27, 2022 1:06 pm
Can the simulation results of Python and HOC be different?

Last post by virtualkss « Wed Jul 20, 2022 10:05 pm
Replies: 5
by virtualkss » Mon Jul 18, 2022 5:56 am

5 Replies

134 Views

Last post by virtualkss
Wed Jul 20, 2022 10:05 pm
Trouble using play method on Python with complex cells

Last post by gabrielggn « Thu Jul 07, 2022 4:00 am

by gabrielggn » Thu Jul 07, 2022 4:00 am

0 Replies

118 Views

Last post by gabrielggn
Thu Jul 07, 2022 4:00 am
Detection of MOD files in rxd.Region 'o'

Last post by malthe.nielsen « Mon Jul 04, 2022 2:47 am
Replies: 3
by malthe.nielsen » Thu May 26, 2022 2:30 am

3 Replies

441 Views

Last post by malthe.nielsen
Mon Jul 04, 2022 2:47 am
Minor typo in tutorial

Last post by ramcdougal « Mon Jun 13, 2022 3:56 pm
Replies: 1
by fietkiewicz » Mon Jun 13, 2022 3:45 pm

1 Replies

129 Views

Last post by ramcdougal
Mon Jun 13, 2022 3:56 pm
Mechanisms ignored when attempting to initialize events

Last post by pacificmadrone « Wed Jun 01, 2022 3:26 pm
Replies: 2
by pacificmadrone » Thu May 12, 2022 2:55 pm

2 Replies

545 Views

Last post by pacificmadrone
Wed Jun 01, 2022 3:26 pm
Uploading .swc file through .hoc

Last post by ted « Mon Apr 25, 2022 11:46 am
Replies: 3
by neuron121! » Sat Apr 02, 2022 2:13 pm

3 Replies

323 Views

Last post by ted
Mon Apr 25, 2022 11:46 am
Assignments in time and time-dependent functions

Last post by ramcdougal « Sat Apr 02, 2022 5:35 pm
Replies: 2
by duytanph » Wed Feb 16, 2022 6:40 pm

2 Replies

302 Views

Last post by ramcdougal
Sat Apr 02, 2022 5:35 pm
Problem plotting PlotShape

Last post by ted « Tue Mar 22, 2022 12:02 pm
Replies: 7
by fvarkevisser » Thu Sep 23, 2021 10:53 am

7 Replies

894 Views

Last post by ted
Tue Mar 22, 2022 12:02 pm
Using setpointer() and RXD concentrations

Last post by ramcdougal « Mon Mar 07, 2022 11:40 am
Replies: 3
by amerg » Mon Aug 26, 2019 6:16 pm

3 Replies

1800 Views

Last post by ramcdougal
Mon Mar 07, 2022 11:40 am
IClamp and ImpedanceRatio in python

Last post by rmaina « Tue Feb 15, 2022 2:12 pm
Replies: 2
by rmaina » Fri Feb 11, 2022 12:46 pm

2 Replies

377 Views

Last post by rmaina
Tue Feb 15, 2022 2:12 pm
Plotting Ca current through different types of VDCC's

Last post by adamjhn « Thu Feb 10, 2022 10:53 am
Replies: 6
by sangwonc » Mon Dec 06, 2021 6:40 pm

6 Replies

680 Views

Last post by adamjhn
Thu Feb 10, 2022 10:53 am
Different initial concentration and potential in different cells

Last post by adamjhn « Thu Feb 03, 2022 3:08 pm
Replies: 2
by Barbara » Tue Feb 01, 2022 9:32 am

2 Replies

260 Views

Last post by adamjhn
Thu Feb 03, 2022 3:08 pm
Shape plot update from Python

Last post by ted « Tue Feb 01, 2022 3:15 pm
Replies: 4
by ziemek » Mon Dec 02, 2019 1:22 pm

4 Replies

1815 Views

Last post by ted
Tue Feb 01, 2022 3:15 pm
Recording multiple netcon's weight with one synapse mechanism

Last post by ted « Fri Dec 31, 2021 11:11 am
Replies: 3
by dragon88hj » Thu Dec 30, 2021 1:58 am

3 Replies

341 Views

Last post by ted
Fri Dec 31, 2021 11:11 am
solving differential equation describing Vm

Last post by ted « Sat Dec 04, 2021 4:57 pm
Replies: 1
by finesniper » Fri Dec 03, 2021 5:07 pm

1 Replies

3405 Views

Last post by ted
Sat Dec 04, 2021 4:57 pm
How to refer to numeric value of crxd.v?

Last post by adamjhn « Tue Nov 23, 2021 3:00 pm
Replies: 3
by sangwonc » Wed Nov 17, 2021 6:33 pm

3 Replies

692 Views

Last post by adamjhn
Tue Nov 23, 2021 3:00 pm
hh.mod + Python + membrane potential at several points of the soma

Last post by ted « Tue Nov 16, 2021 12:01 pm
Replies: 5
by smetens » Wed Jun 09, 2021 11:09 am

5 Replies

1584 Views

Last post by ted
Tue Nov 16, 2021 12:01 pm
Time dependent NetCon weight

Last post by ted « Thu Nov 04, 2021 12:10 pm
Replies: 1
by ido4848 » Thu Nov 04, 2021 3:35 am

1 Replies

398 Views

Last post by ted
Thu Nov 04, 2021 12:10 pm
added a synapse with python

Last post by ted « Wed Nov 03, 2021 2:04 pm
Replies: 1
by OronKotler » Sun Oct 31, 2021 4:08 am

1 Replies

408 Views

Last post by ted
Wed Nov 03, 2021 2:04 pm
Adding a Rate to an Ion based on the flux of another Reaction function

Last post by adamjhn « Thu Oct 14, 2021 11:41 am
Replies: 1
by jetlim » Wed Oct 13, 2021 3:22 pm

1 Replies

5343 Views

Last post by adamjhn
Thu Oct 14, 2021 11:41 am
How to set spike detection threshold for pc.spike_record

Last post by Johannes « Thu Oct 14, 2021 9:40 am
Replies: 2
by Johannes » Wed Oct 13, 2021 6:03 am

2 Replies

3344 Views

Last post by Johannes
Thu Oct 14, 2021 9:40 am
Error running NEURON with embedded Python

Last post by ted « Wed Oct 13, 2021 12:37 pm
Replies: 3
by ttarnaud » Fri Dec 07, 2018 10:56 am

3 Replies

3914 Views

Last post by ted
Wed Oct 13, 2021 12:37 pm
problem instantiating a hoc template from python

Last post by ted « Sun Sep 19, 2021 1:25 am
Replies: 3
by alexandrapierri » Fri Sep 17, 2021 8:46 pm

3 Replies

637 Views

Last post by ted
Sun Sep 19, 2021 1:25 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

1079 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

1450 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

609 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

2399 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

918 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

691 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

1134 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

587 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

357 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

527 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

699 Views

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

778 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

1039 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

683 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

930 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

1101 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

1056 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

711 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

743 Views

Last post by ted
Wed Mar 24, 2021 10:26 am

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