RPI Trace 3D

RPI Trace 3d is the an older tracing algorithm for neuron cells. The tracer is run from the command line with a configuration XML file. The input file type is restricted to .PIC

Sample configuration file:

<?xml version="1.0"?>
<parameters>
 	<parameter name="input_image" value="ETR052Z1.PIC"/>
 	<parameter name="SeedsSamplingDensity" value="6"/>
 	<parameter name="MinTemplateLength" value="11"/> 
 	<parameter name="MaxTemplateLength" value="14"/> 
 	<parameter name="MinShiftDistance" value="2"/>
 	<parameter name="MaxShiftDistance" value="28"/> 
 	<parameter name="DirectionFreedom" value="5"/>
 	<parameter name="StepSize" value="3"/>
 	<parameter name="TracingSensitivity" value="3"/>
 	<parameter name="MaxAllowedStoppingViolations" value="3"/>
 	<parameter name="RelativeShiftDistance" value="2"/> 
 	<parameter name="DetectSoma" value="n"/> 
 	<parameter name="MergeTraceEndPoints" value="n"/> 
 	<parameter name="DetectBranchPoints" value="y"/>
 	<parameter name="MaxBranchSearchDistance" value="20"/>
</parameters>