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: 383

383 Topics

1977 Posts

Last post Re: Record and fadvance inste…
by fkolbl View the latest post
Thu Dec 31, 2020 11:23 am
Reaction-diffusion in NEURON
Extending NEURON to handle reaction-diffusion problems.
Moderators: hines, wwlytton, ramcdougal
Topics: 61

61 Topics

266 Posts

Last post Re: Issue with larger and mor…
by adamjhn View the latest post
Mon Nov 16, 2020 10:18 am

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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

13187 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

25984 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

17268 Views

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

141 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

203 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

135 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

278 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

298 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

584 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

316 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

1824 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

4092 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

2924 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

1343 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

304 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

521 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

382 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

412 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

1496 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

672 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

740 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

961 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

822 Views

Last post by ziemek
Sat Jul 11, 2020 6:13 am
Using NEURON to model a system of endocrine cells

Last post by Robert Claar « Fri Jul 03, 2020 8:21 am
Replies: 2
by Robert Claar » Tue Jun 30, 2020 2:58 pm

2 Replies

522 Views

Last post by Robert Claar
Fri Jul 03, 2020 8:21 am
rxd.plugins interface in Neuron 7.7

Last post by davidsterratt « Tue Jun 30, 2020 11:38 am
Replies: 2
by davidsterratt » Thu Jun 25, 2020 4:57 am

2 Replies

479 Views

Last post by davidsterratt
Tue Jun 30, 2020 11:38 am
Error recording channel current by passing string to Vector.record

Last post by ramcdougal « Mon Jun 29, 2020 12:38 pm
Replies: 3
by Darshan » Sat Jun 20, 2020 1:42 am

3 Replies

567 Views

Last post by ramcdougal
Mon Jun 29, 2020 12:38 pm
ampanmda mod file working with AlphaSynapse

Last post by ted « Tue Jun 23, 2020 4:29 pm
Replies: 7
by parent41 » Fri Jun 05, 2020 10:53 am

7 Replies

1525 Views

Last post by ted
Tue Jun 23, 2020 4:29 pm
range morphology and mechanism syntax for sections in python

Last post by ted « Sat May 30, 2020 2:02 am
Replies: 9
by nicholasmg » Mon May 11, 2020 11:26 pm

9 Replies

2215 Views

Last post by ted
Sat May 30, 2020 2:02 am
using compiled mod files from python script in a different direcory

Last post by nicholasmg « Wed Apr 29, 2020 6:09 pm
Replies: 2
by nicholasmg » Wed Apr 29, 2020 5:43 pm

2 Replies

2163 Views

Last post by nicholasmg
Wed Apr 29, 2020 6:09 pm
Problem initializing with rxd.Rate

Last post by mandy « Thu Apr 23, 2020 3:16 pm
Replies: 2
by mandy » Wed Apr 22, 2020 2:50 pm

2 Replies

1004 Views

Last post by mandy
Thu Apr 23, 2020 3:16 pm
MultiCompartmentReaction Section List Mismatch

Last post by adamjhn « Mon Apr 13, 2020 12:57 pm
Replies: 1
by amerg » Fri Apr 10, 2020 4:17 pm

1 Replies

659 Views

Last post by adamjhn
Mon Apr 13, 2020 12:57 pm
Record from multiple neurons

Last post by ted « Thu Apr 09, 2020 12:05 pm
Replies: 2
by Mrohani57 » Wed Apr 08, 2020 6:47 pm

2 Replies

766 Views

Last post by ted
Thu Apr 09, 2020 12:05 pm
Copy a nrn object in Python?

Last post by ramcdougal « Sat Apr 04, 2020 4:55 pm
Replies: 5
by igor » Wed Apr 01, 2020 1:02 pm

5 Replies

1214 Views

Last post by ramcdougal
Sat Apr 04, 2020 4:55 pm
inserting synaptic mechanisms from mod file

Last post by ted « Fri Apr 03, 2020 1:37 pm
Replies: 1
by Natali83 » Wed Apr 01, 2020 1:44 pm

1 Replies

780 Views

Last post by ted
Fri Apr 03, 2020 1:37 pm
NetStim and NetCon

Last post by ramcdougal « Thu Apr 02, 2020 9:47 am
Replies: 3
by anandhupresannan » Mon Mar 09, 2020 1:15 am

3 Replies

1022 Views

Last post by ramcdougal
Thu Apr 02, 2020 9:47 am
Cell membrane with PMCA pump

Last post by adamjhn « Fri Mar 06, 2020 12:24 pm
Replies: 3
by ziemek » Fri Jan 03, 2020 10:56 am

3 Replies

1032 Views

Last post by adamjhn
Fri Mar 06, 2020 12:24 pm
Using vectors as arguments for pt3dadd

Last post by neuromau « Tue Mar 03, 2020 9:06 pm
Replies: 2
by neuromau » Mon Mar 02, 2020 3:46 pm

2 Replies

765 Views

Last post by neuromau
Tue Mar 03, 2020 9:06 pm
Multicomp model, ECS, pumps and strange concentrations

Last post by ramcdougal « Fri Feb 28, 2020 10:50 am
Replies: 3
by bremen » Thu Feb 27, 2020 10:17 am

3 Replies

755 Views

Last post by ramcdougal
Fri Feb 28, 2020 10:50 am
Vector Values

Last post by ramcdougal « Wed Feb 26, 2020 9:46 am
Replies: 2
by Jahanzaib » Tue Feb 25, 2020 2:50 pm

2 Replies

775 Views

Last post by ramcdougal
Wed Feb 26, 2020 9:46 am
Making a Nucleus

Last post by adamjhn « Tue Feb 25, 2020 10:25 am
Replies: 1
by RBJ » Sat Nov 30, 2019 9:36 am

1 Replies

819 Views

Last post by adamjhn
Tue Feb 25, 2020 10:25 am
length scales and SparseEfficiencyWarning

Last post by bschneiders « Wed Feb 05, 2020 3:29 pm
Replies: 5
by bschneiders » Fri Nov 08, 2019 7:02 pm

5 Replies

1216 Views

Last post by bschneiders
Wed Feb 05, 2020 3:29 pm
For loop over section's segments in Python and HOC returns different values

Last post by ramcdougal « Fri Jan 31, 2020 5:15 pm
Replies: 4
by ziemek » Fri Jan 31, 2020 5:14 am

4 Replies

1123 Views

Last post by ramcdougal
Fri Jan 31, 2020 5:15 pm
Rset or reboot neuron without exist in python

Last post by ramcdougal « Wed Jan 29, 2020 8:07 pm
Replies: 6
by anandhupresannan » Wed Feb 27, 2019 1:14 am

6 Replies

2088 Views

Last post by ramcdougal
Wed Jan 29, 2020 8:07 pm
Dynamically accessing vectors in python (_ref_x)

Last post by cstricker « Sun Jan 19, 2020 5:27 pm
Replies: 5
by cstricker » Thu Jan 09, 2020 2:10 am

5 Replies

1198 Views

Last post by cstricker
Sun Jan 19, 2020 5:27 pm
different section names, morphology - h.Section

Last post by bremen « Thu Jan 16, 2020 4:10 pm
Replies: 2
by bremen » Fri Jan 10, 2020 4:53 pm

2 Replies

794 Views

Last post by bremen
Thu Jan 16, 2020 4:10 pm
Finding middle of a section

Last post by ted « Mon Jan 13, 2020 1:00 pm
Replies: 4
by ssrihari » Sat Jan 11, 2020 5:50 pm

4 Replies

994 Views

Last post by ted
Mon Jan 13, 2020 1:00 pm
Converting HOC extracellular to Python

Last post by ssrihari « Sat Jan 11, 2020 7:36 pm
Replies: 3
by ssrihari » Tue Dec 31, 2019 5:42 pm

3 Replies

964 Views

Last post by ssrihari
Sat Jan 11, 2020 7:36 pm
Checking the units

Last post by ziemek « Fri Jan 03, 2020 10:53 am
Replies: 2
by ziemek » Fri Jan 03, 2020 9:11 am

2 Replies

676 Views

Last post by ziemek
Fri Jan 03, 2020 10:53 am
The best practice of Ca2+ pumps on the cell membrane implemented in RxD model

Last post by adamjhn « Fri Jan 03, 2020 9:45 am
Replies: 3
by ziemek » Wed Dec 18, 2019 7:10 am

3 Replies

879 Views

Last post by adamjhn
Fri Jan 03, 2020 9:45 am
Print Issue after using .connect()

Last post by ted « Thu Jan 02, 2020 10:05 pm
Replies: 1
by ssrihari » Tue Dec 31, 2019 4:19 pm

1 Replies

731 Views

Last post by ted
Thu Jan 02, 2020 10:05 pm

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