Reaction-diffusion in NEURON

Moderators: hines, wwlytton, ramcdougal

New Topic

83 topics

Announcements

Replies

Views

Last post

Introduction and request for suggestions

Last post by Keivan « Thu Aug 08, 2013 10:48 am
Replies: 5
by wwlytton » Fri Feb 13, 2009 7:58 am

5 Replies

39122 Views

Last post by Keivan
Thu Aug 08, 2013 10:48 am

Topics

Replies

Views

Last post

Rxd MultipleGeometry

Last post by fidel.santamaria « Wed Apr 09, 2025 1:00 pm

by fidel.santamaria » Wed Apr 09, 2025 1:00 pm

0 Replies

23926 Views

Last post by fidel.santamaria
Wed Apr 09, 2025 1:00 pm
Changing RxD species concentration from a point process using USEION

Last post by wthu « Fri May 03, 2024 12:26 pm

by wthu » Fri May 03, 2024 12:26 pm

0 Replies

62899 Views

Last post by wthu
Fri May 03, 2024 12:26 pm
Setting concentrations in rxd.State nodes as a function of concentrations in other rxd.State nodes

Last post by Robert Claar « Tue Apr 23, 2024 11:47 am
Replies: 1
by Robert Claar » Sun Apr 14, 2024 1:50 pm

1 Replies

26924 Views

Last post by Robert Claar
Tue Apr 23, 2024 11:47 am
Cell membrane with PMCA pump

Last post by Feanor « Thu Nov 23, 2023 4:44 pm
Replies: 4
by ziemek » Fri Jan 03, 2020 10:56 am

4 Replies

68227 Views

Last post by Feanor
Thu Nov 23, 2023 4:44 pm
Setting ion specifications in rxd leads to region overlap error

Last post by bril27 « Mon Sep 04, 2023 6:36 am
Replies: 2
by bril27 » Sun Sep 03, 2023 8:18 am

2 Replies

45537 Views

Last post by bril27
Mon Sep 04, 2023 6:36 am
MultiCompartmentReaction across sections

Last post by hines « Wed Aug 30, 2023 8:02 pm
Replies: 6
by Tuoma » Tue Aug 15, 2023 7:11 am

6 Replies

48213 Views

Last post by hines
Wed Aug 30, 2023 8:02 pm
Integrating RxD Ca reactions with MOD mechanisms

Last post by Tuoma « Thu Aug 03, 2023 6:10 am
Replies: 5
by Tuoma » Tue Aug 01, 2023 9:30 am

5 Replies

46768 Views

Last post by Tuoma
Thu Aug 03, 2023 6:10 am
Effects of Gravity on RDX

Last post by theiera « Tue Jun 20, 2023 4:26 am

by theiera » Tue Jun 20, 2023 4:26 am

0 Replies

79059 Views

Last post by theiera
Tue Jun 20, 2023 4:26 am
Recording individual fluxes on a species that includes multiple mechanisms

Last post by duytanph « Wed May 17, 2023 6:59 pm
Replies: 4
by duytanph » Tue May 02, 2023 3:04 pm

4 Replies

43776 Views

Last post by duytanph
Wed May 17, 2023 6:59 pm
Can rxd.Rate() intrinsically keep track of currents?

Last post by adamjhn « Wed May 10, 2023 12:47 pm
Replies: 1
by duytanph » Tue Apr 04, 2023 6:57 pm

1 Replies

39122 Views

Last post by adamjhn
Wed May 10, 2023 12:47 pm
parameter controlling the rate of influx of a species in multiple compartments

Last post by Tuoma « Thu Oct 13, 2022 2:16 am
Replies: 1
by Tuoma » Wed Oct 05, 2022 11:09 am

1 Replies

30890 Views

Last post by Tuoma
Thu Oct 13, 2022 2:16 am
Reading species concentration in a MOD file using a list of species

Last post by ramcdougal « Mon Sep 19, 2022 3:05 pm
Replies: 1
by Tuoma » Mon Sep 19, 2022 7:33 am

1 Replies

29619 Views

Last post by ramcdougal
Mon Sep 19, 2022 3:05 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

30744 Views

Last post by neuron121!
Wed Jul 27, 2022 1:06 pm
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

37323 Views

Last post by malthe.nielsen
Mon Jul 04, 2022 2:47 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

26600 Views

Last post by ramcdougal
Sat Apr 02, 2022 5:35 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

28816 Views

Last post by ramcdougal
Mon Mar 07, 2022 11:40 am
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

45907 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

25383 Views

Last post by adamjhn
Thu Feb 03, 2022 3:08 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

26713 Views

Last post by adamjhn
Tue Nov 23, 2021 3:00 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

29576 Views

Last post by adamjhn
Thu Oct 14, 2021 11:41 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

27975 Views

Last post by Robert Claar
Sat Aug 28, 2021 3:50 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

34747 Views

Last post by itaru
Tue Aug 03, 2021 3:55 am
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

70261 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

27007 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

23781 Views

Last post by itaru
Thu Jul 01, 2021 1:09 am
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

25067 Views

Last post by adamjhn
Tue Apr 27, 2021 10:07 am
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

41767 Views

Last post by ramcdougal
Mon Mar 01, 2021 3:20 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

24534 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

25469 Views

Last post by ilariac
Wed Oct 14, 2020 4:00 am
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

33849 Views

Last post by adamjhn
Tue Jul 14, 2020 9:12 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

24770 Views

Last post by davidsterratt
Tue Jun 30, 2020 11:38 am
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

27002 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

24823 Views

Last post by adamjhn
Mon Apr 13, 2020 12:57 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

25485 Views

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

25401 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

32580 Views

Last post by bschneiders
Wed Feb 05, 2020 3:29 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

25076 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

26705 Views

Last post by adamjhn
Fri Jan 03, 2020 9:45 am
rxd, crxd and dx

Last post by ziemek « Wed Dec 11, 2019 5:28 am
Replies: 2
by ziemek » Tue Dec 10, 2019 3:11 pm

2 Replies

26758 Views

Last post by ziemek
Wed Dec 11, 2019 5:28 am
The equilibrium between the FS and external

Last post by ted « Thu Dec 05, 2019 11:21 pm
Replies: 20
by ahmed.hamzah » Sun Oct 20, 2019 8:42 pm
1

2
20 Replies

61705 Views

Last post by ted
Thu Dec 05, 2019 11:21 pm
Node.d (Diffusion) for Node3D objects

Last post by RBJ « Sat Nov 30, 2019 9:29 am
Replies: 2
by RBJ » Sat Oct 26, 2019 8:20 am

2 Replies

26686 Views

Last post by RBJ
Sat Nov 30, 2019 9:29 am
Tracking External and Internal Na & K concentration

Last post by ted « Wed Nov 06, 2019 10:02 pm
Replies: 2
by ahmed.hamzah » Tue Nov 05, 2019 4:24 pm

2 Replies

25864 Views

Last post by ted
Wed Nov 06, 2019 10:02 pm
NEURON 7.7.1 RxD issue

Last post by bremen « Mon Oct 07, 2019 2:52 pm
Replies: 2
by bremen » Thu Oct 03, 2019 8:45 am

2 Replies

26130 Views

Last post by bremen
Mon Oct 07, 2019 2:52 pm
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

26417 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

24441 Views

Last post by adamjhn
Thu Aug 15, 2019 5:25 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

31998 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

23670 Views

Last post by adamjhn
Wed Aug 14, 2019 10:25 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

25420 Views

Last post by Darshan
Sun Aug 04, 2019 1:07 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

34830 Views

Last post by adamjhn
Mon Jul 08, 2019 10:35 am
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

25173 Views

Last post by yuzhou
Tue May 07, 2019 8:55 pm

New Topic

83 topics

Return to Board Index

Forum permissions

You cannot post new topics in this forum
You cannot reply to topics in this forum
You cannot edit your posts in this forum
You cannot delete your posts in this forum