www.neuron.yale.edu

This problem was resolved by a suggestion by Michael Hines to add a dummy current to the calcium concentration mechanisms (called ifake in ca_soma.mod, ca_dist.mod, and ca_prox.mod in the updated ModelDB archive) which would then cause the solver calculation of the breakpoint to be at the same simul...

When installing neuron by sources on FC7 the following packages need to be installed so that header files for x11, readline, and the Xext libraries are available for the build: yum install libXt-devel libXext-devel readline-devel (End of of what is needed) The below error messages are included here ...

I received the following error during compiling mod files on fedora core 7 with the NEURON -- Release 6.0.1 (1780) 2007-06-12 nrnivmodl: ... gcc -shared .libs/leak.o .libs/oldtsyn.o .libs/shunt.o .libs/thold.o .libs/mod_func.o -Wl,--rpath -Wl,/usr/local/nrn/i686/lib -Wl,--rpath -Wl,/usr/local/nrn/i6...

We received a request for help from a modeler who cound not get a NEURON simulation with mod files with assert statements such as this nmda.mod to work under mswin : COMMENT ----------------------------------------------------------------------------- Simple synaptic mechanism derived for first orde...

In an attempt to bring more joy to ModelDB word searches I have added a hint link http://senselab.med.yale.edu/senselab/ModelDB/perlfect_hint.html on the ModelDB home page http://senselab.med.yale.edu/senselab/ModelDB/ on how to use the supplied perlfect engine driven search. Using the "+"...

Double check that you have compiled the mod files ( I see you said you did but maybe you are starting over now): 1) After the archive is unziped drag and drop the newly created folder onto the mknrndll icon. 2) Then drag and drop the mosinit.hoc from the folder onto the nrngui icon. (There might be ...

The following code sample displays a shape-shape plot by playing vectors into the voltage of the sections. It is better to voltage clamp the sections but this will probably work for you. The shp.ses file was created by saving the shape shape plot as a session file and is included after the long dash...

Let's say you just had two compartments a soma and a dend
Then your program could say

soma.v(0.5)=10
dend.v(0.5)= -20

You might want to write matlab code that writes hoc code similar to above.
So you probably get the idea of what to do with your matlab values. If not please ask more.

Here is another neuronal (and mostly heart) modeling site:
http://nsr.bioeng.washington.edu/PLN/Me ... portal_url

Tip: There is a free graphics program called "gimp" that is available for the unix, windows, or mac OS X platforms at the web site http://www.gimp.org/

Gimp can translate graphic images from postscript (format of graphics output from NEURON) to jpg, png, tif, and many other formats.

We found that the workstation installation of RedHat Fedora Core 4 came without the X11 (X11R6) header files that normally come with a unix OS and that are required for building interviews (without these files running ./configure quits after an error message ... checking for X... no configure: error...

I wanted to explain how to use ModelDB to find Cerebellar purkinje cell's. Start from the ModelDB home page and then click on 'Find models of a particular Neuron type'. Then click on Cerebellar purkinje cell. You will be lead to the below link which has links to (currently 5) Cerebellar purkinje cel...

Here are 10 URL's to models and methods from diverse fields in computational neuroscience: C-C++: 1) Rat phrenic motor neuron (Amini et al 2004) Files available.. http://www.ece.rice.edu/~jwc/PMN/ Genesis: 2) Emergent properties of networks of biological signaling pathways (Bhalla, Iyengar 1999) htt...

ModelDB and Visiome Platform are two databases of neuronal and network models: http://senselab.med.yale.edu/senselab/modeldb http://www.visiome.org Descriptions from their respective home pages: ModelDB provides an accessible location for storing and efficiently retrieving computational neuron model...