Using the CellBuilder
These tutorials show how to use the CellBuilder,
a powerful and convenient tool
for constructing and managing models of individual neurons.
The CellBuilder is a "graphical form for specifying the properties of a model cell."
It breaks the job of model specification into a sequence of tasks :
These are the same things we would have to do,
and pretty much the same sequence we'd follow,
in order to define a model by writing hoc code.
However, the CellBuilder helps us keep it all nice and organized,
and eliminates a lot of error-prone
typgin . . . ptyngi . . . typing.
- Setting up model topology (branching pattern).
- Grouping sections with shared properties into subsets.
- Assigning geometric properties (length, diameter) to subsets or individual sections,
and specifying a discretization strategy (i.e. how to set nseg).
- Assigning biophysical properties (Ra, cm, ion channels, buffers, pumps, etc.)
to subsets or individual sections.
Creating a stylized ("stick figure") model cell.
Given a conceptual model that has a simple branched topology,
we implement a computational model.
This introduces material that is helpful in the following tutorials.
Managing a model cell with complex anatomy.
We use the CellBuilder to specify the spatial grid (nseg)
and biophysical properties
of a model based on detailed morphometric data.
Specifying parameterized variation of biophysical properties.
How to make one or more biophysical properties vary systematically
with position in space.
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Copyright © 1999-2006 by N.T. Carnevale and M.L. Hines, All Rights