Class HTP

java.lang.Object
  HTP

All Implemented Interfaces:

ij.plugin.PlugIn

public class HTP
extends java.lang.Object
implements ij.plugin.PlugIn

ImageJ-Plugin: HTPheno (High-Throughput Phenotyping)
The main programme which contains the workflow, implemented as Plugin for ImageJ.

Field Summary

java.lang.String	path
double	scaling

Constructor Summary

HTP()

Method Summary

void	doTheActualProcessing() Contains the complete workflow of HTPheno.
void	run(java.lang.String arg) Runs the ImageJ plugin.

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

path

public java.lang.String path

scaling

public double scaling

Constructor Detail

HTP

public HTP()

Method Detail

run

public void run(java.lang.String arg)

Runs the ImageJ plugin.

Specified by:

run in interface ij.plugin.PlugIn

Parameters:

arg - A String passed as an argument to the plugin to either run HTPheno in 'single image' or 'complete directory' mode.

doTheActualProcessing

public void doTheActualProcessing()

Contains the complete workflow of HTPheno.

• Obtaining the image(s),
• Loading the configuration files,
• Colour range classification,
• Single pixel removal,
• Remove non connected clusters of green pixel,
• Apply region fill,
• Classify according to colour similarity,
• Apply region fill again,
• Conduct image property calculations,
• Create the final image stack and the results table.