count number of pixels of zero intensity in ROIs

Short Description

This script takes the current active sequence and loop over its region of interest. For each ROI, it displays the number of pixels contained in the ROI, and the number of pixels having an intensity of zero.

Versions

Version 2 • Released on: 2014-09-10 10:01:34

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Description:

Script fixed ( ==0 instead of != 0 )
Percentage added

importClass(Packages.icy.sequence.SequenceDataIterator)
importClass(Packages.icy.roi.ROIUtil)

seq = getSequence()

roiList = seq.getROI2Ds()

for ( i = 0 ; i < roiList.size() ; i++ )
{
	
	roi = roiList.get( i )
	println("ROI " + roi.getName() +":" )

	totalPixel = roi.getArea()
	println("Total number of pixel: " + totalPixel )

	iterator = new SequenceDataIterator( seq, roi)
	nbPixelZeroValue = 0
	while ( !iterator.done() )
	{	
		value = iterator.get()
		if ( value == 0 ) nbPixelZeroValue++

		iterator.next()
	}
	
	println( "number of pixels having value 0:" + nbPixelZeroValue )

	percentOfPixelAtZero = 100.0 * nbPixelZeroValue / totalPixel
	println( "% of pixel at 0 value: " + percentOfPixelAtZero )
	
}

importClass(Packages.icy.sequence.SequenceDataIterator)

importClass(Packages.icy.roi.ROIUtil)

seq = getSequence()

roiList = seq.getROI2Ds()

for ( i = 0 ; i < roiList.size() ; i++ )

{

roi = roiList.get( i )

println("ROI " + roi.getName() +":" )

totalPixel = roi.getArea()

println("Total number of pixel: " + totalPixel )

iterator = new SequenceDataIterator( seq, roi)

nbPixelZeroValue = 0

while ( !iterator.done() )

{

value = iterator.get()

if ( value == 0 ) nbPixelZeroValue++

iterator.next()

}

println( "number of pixels having value 0:" + nbPixelZeroValue )

percentOfPixelAtZero = 100.0 * nbPixelZeroValue / totalPixel

println( "% of pixel at 0 value: " + percentOfPixelAtZero )

}

Version 1 • Released on: 2014-09-08 11:12:12