Ex_01_simple_soma.m

create('soma');                     %create a variable named soma with default parameters.
%-------------------------------------------------------------------------------------------
global soma                         %required for all variables created
%-------------------------------------------------------------------------------------------
insert(soma,'hh')                   %insert HH channel into SOMA    [variable model]       
Iinstim(soma,0.5,0.0005,500,100)    %intracellular stimulation      [variable positon(0-1) amp(uA) pulsewidth(us)  delay(us)]
%Multiple stimulators supported
if 0
Iinstim(soma,0.1,'Isin')            %Stimulation as a function of time       [variable positon(0-1) Function_Name]
Iinstim(soma,0.9,'SquarePulse')     %Stimulation as a function of time       [variable positon(0-1) Function_Name]
end


%The parameters that are used in Neurocal are
%.name			%  	    internal use.
%.varnum        %  	    internal use.
%.nseg			% 	    number of segments for the variable.
%.dia       	%(um)	the outer diameter of the variable.
%.da_D  		%		axon/Fiber diameter ratio for calculating the axonal resistance 
                %         - for myelinated axon. if this value is empty(default), 
%                         - .dia will be used instead.
%.dn_D      	%	    node/Fiber diameter ratio for node of Ranvior for calculating the membrane resistance
                %         - and membrane capacitance for myelinated axon. If this value is empty(default), 
                %         - .dia will be used instead.
%.Linter_D      %       Internodal distance / Diameter                
%.L  		    %(um)	the total length of the variable.
%.Lmode         %       1=fix=L, 2 = Linter_D x D x nseg
%.lnodal      	%(um)	Lengh of node of Ranvior for calculating the membrane resistance
                %         - and membrane capacitance for myelinated axon. If this value is empty(default), 
                %         - L/nseg will be used instead.
%.cm	       	%(uf/cm2)for calculating membrane capacitance
%.ra           	%(ohm-cm)for calculating axonal resistance
%.rm           	%(kohm-cm2)for calculating membrane resistance.
%.vini	    	%(mV)
%.model         %
%.vestim		%(mV)   Extracellular voltage (when Ve is not calculated,
%                         - but assigned manually
%.xyz			%(um)   Coordinate of the nodes used for calculating the Ve
%.xyzi    	    % unitless: Vector of the variable (axon) for calculating the coordinate for all nodes
%.xyzc          % um:       The coordinate of the node at the center