www.neuron.yale.edu

the first thing to do is to get the binning done using either obj = vdest.hist(vsrc, low, size, width) OR newvect = vsrc.histogram(low, high, width) in order to do this you will need to pick up t vectors on a per-cell basis (as you said) you can do this by using indvwhere() vdest.indvwhere(vsource,&...

Paul Tiesinga has a large number of sync measures and other ways of interpreting population spike patterns eg mean ISI for neuron n is tauN, CV is (stdev of tauNi)/<tauN> associate a particular interval statistic with the midpoint of the ISI The interspike interval of the combined set of network spi...

We are planning to augment NEURON to implement biochemical reaction-diffusion (RD) as well as facilitated cytoplasmic transport in NEURON. This would involve complementing the present integration of the one-dimensional cable equation with a meshed integration of diffusing reactants in multiple 3D (c...

you can use Hinton plots -- vec.hinton() -- to make x,y animations where each square is a single cell or a single compartment you can also use shapeplot after distributing the cells appropriately in the following image http://it.neurosim.downstate.edu/~billl/03jul19CA3cells.gif I threw down some cel...

(this problem may only apply if using separate source and build directories) after I updated with subversion, the version banner was not correct, still reflecting version from the prior installation 1. first check whether the version file is in fact old cat $SOURCE_DIR/src/nrnoc/nrnversion.h 2. if s...

I did not run into any problem compiling iv-17 (the gcc was already 3.3) but did run into minor problems with compiling NEURON 1. I was unable to compile from source presumably due to antique autoconf etc under IRIX Solution: downloaded the prepared alpha version (http://www.neuron.yale.edu/ftp/neur...

When building a network it is natural to assign locations to an ARTIFICIAL CELLs using RANGE x,y,z be aware that this translates in the .c header to eg #define x _p[32] #define y _p[33] #define z _p[34] if you now use x, y or z in a VERBATIM block, there will be precompilation translation of those v...

The Izhikevich model has been replaced with a new improved version for NEURON. The new .mod file uses the WATCH statement so as to avoid the need to have an external NetCon looking for threshold passage A gsyn parameter has been added to allow activation from NetCons This makes it easy to include th...

I have not been using the Izh. model and just posted it as a service. Paolo, please let us know what you want -- if you would like me to fix my implementation I would be happy to do so; if you would like to use Ron's implementation it sounds like he would be happy to provide it either way, I would s...

did one of you want to fix this model or would you like me to fix it? sounds like the easiest thing would be to specify a specific flag in the implementation so as not to interfere with netcons unfortunately I do not have matlab so cannot compare to Izhekevich current model; I believe that Mike and ...

Has anyone tested the randomizers available in NEURON for adequacy? I would like to use a randomizer to select a number in a seeded series by an index. Does anyone know how to do that with any of those available or with some other randomizer? I tested them for speed and was surprised at the discrepe...

// $Id: drline.hoc,v 1.6 2006/06/29 23:36:22 billl Exp $ // click and drag left button to draw lines on top of a figure interactively // select graph to draw on with setdrl(Graph[]) // set color with clr, line width with lne // select 'Draw curve' for continuous drawing // select 'Arrow' to place a...

You cannot include C++ in mod files. However there are C++ packages in Neuron: vectors and lists that have wrappers compiled and therefore can be used. eg extern void vector_resize(); extern int vector_instance_px(); One could use these examples to include an additional file in the initial build and...

We used Condor with Neuron 10 years ago but I don't remember anything much about the details of this.

It is possible to do a static compilation -- there is an --enable-static flag for configure

Bill

I go in the other direction -- I put the network together in a database and then use this to view and manipulate connectivity -- then I load the db into neuron alternatively I do have some code that reads out of cvode.netconlist to produce the database however you mentioned that you are having some ...