The gzipped tar file "jneurophys.jun93.tar.gz" extracts to the directory "jneurophys.jun93".
NOTE: The simulation scripts here are for GENESIS 1. See "mitral_granule2" for GENESIS 2 versions of the mitral cell simulation scripts.
This directory contains simulations and figures from the publication:
'Exploring parameter space in detailed single neuron models:
simulations of the mitral and granule cells of the olfactory bulb'
Upinder S. Bhalla and James M. Bower
Division of Biology, California Institute of Technology.
Journal of Neurophysiology Vol 69 No. 6, June 1993 pp 1948-1965
You are welcome to use the models for your own work, provided we are cited appropriately. The final versions of the figures themselves are copyrighted by the Journal of Neurophysiology, who should be contacted if there are any possible issues related to duplication and reproduction.
Fig Description Subdirectory
1 : Compt ckt diag (generated on a Mac, not stored)
2 : parameter space param_space
3 : Regions of mitral cell (Generated by hand, not stored)
related fig: Channel distrib in mit cell
(not published) mit_chdens
4 : expt/sim data for mit cell mit_curr_inj (Partly photoreproduced)
5 : Classes of mit cells mit_classes
6 : Regions of granule cell (Generated by hand, not stored)
7 : Chan distrib in gran cell gran_chdens (final fig done on Mac)
8 : Expt/sim data from gran cell gran_curr_inj (Partly photoreproduced)
9 : Classes of gran cells gran_classes
10 : Voltage clamp at mit soma vclamp
11 : Spike prop into mit cell dends antidrom
Additional files which may be useful are : bulbchan.g, defaults.g, and compartment.g.
These are used in setting up some of the simulations. They are duplicates from my Neurokit directory, and if you have them it should be fine. Otherwise they should be placed in your simulation path if you are going to try to run the models under Genesis.
The actual cell models are suffixed with a .p. The files in this directory were the ones used to generate the figures for the paper, as described above. I have made a few attempts to clean things up, but in general the stuff here is not much different from my working simulations. In other words, these are not pretty and user-friendly examples, but full industrial strength simulations. Good luck with them!
In some cases the actual figures are also stored as postscript or window dump files.
Upinder S. Bhalla