topo125.hoc

/* top125.hoc

Model for HVC(RA) projection neuron with unmyelinated axon.
Simple ball and stick model of axon and soma.  The axon
has two types of sections one contains a mitodondrion and the other does not.
The section with the mitochondrion has increased intracellular resisitivity.
The length of a mitochondrion containing section is fixed at 1 micron. The
mitochondria containing sections are distributed uniformly along the axon.

This file sets the topological parameters to create an axon with 12.5%
longitudinal mitochondrial coverage, that is 12.5% of the length of the axon
is made up of sections containing mitochondria. The length of an axon section + a mitocondrion
section is 8 microns.

*/
// Set longitudinal mitochondrial coverage to 12.5%
lcover=12.5
printf ("longitudinal mitochondrial coverage = %.10g %\n",lcover)

// Set length of mitochondrion free sections
// Length of mitochondrion containing sections fixed at 1 micron
	axonL=7	//length of axon section without mitochondrion
	nseg_axon=11 //nseg for axon sections without mitochondrion

//topological parameters 
	nmito=250	// number of mitochondria sections
	naxon=250	// number of axon sections

// Set axon sections used to compute conduction velocity
// Sections must be in the middle of the axon separated by 200 microns

 naxon1 = 112
 naxon2 = 137

load_file("HVCRA_neuron.hoc")