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I am new to imagej, and I am attempting to find the areas of peanut shells by using the analyze particles function.
Initially, I imported the images in groups of 10, adjusted the thresholds, and analyzed the particles of the entire stack at once. Unfortunately, by using the Overlay Outlines feature, I could tell that imagej only outlined the peanuts in the last image of the stack, and the areas listed in the results were a series of repeats of the areas of the shells present in the last image of the sequence. As an example, for 3 images (593, 594, 595), containing 3 peanut shells each, the results page might look like the following (the areas repeat in every 3rd reading):
Area
1 C1799_Pod volume images:C1799_593 215710 1093.031 631.459
2 C1799_Pod volume images:C1799_593 217379 1796.208 757.543
3 C1799_Pod volume images:C1799_593 296765 2499.970 955.289
4 C1799_Pod volume images:C1799_594 215710 1093.031 631.459
5 C1799_Pod volume images:C1799_594 217379 1796.208 757.543
6 C1799_Pod volume images:C1799_594 296765 2499.970 955.289
7 C1799_Pod volume images:C1799_595 215710 1093.031 631.459
8 C1799_Pod volume images:C1799_595 217379 1796.208 757.543
9 C1799_Pod volume images:C1799_595 296765 2499.970 955.289
I have been unable to sort out how to correctly find the peanut shell areas of all the images in a stack using this approach.
As another approach, I imported an image sequence, then I changed the images in the stack to binary. When I analyzed the particles for the images in this stack, imagej was able to correctly outline and list results for the peanut shells of every image in the stack. The problem I am having with this approach is parts of the shells that are darker or shadowed in the images are not being captured in the area calculation. I am unable to adjust the brightness threshold for these binary images in order to capture the entire shells in the area measurements.
Any suggestions for improving either of these two approaches?
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Locked
Feb 13, 2013; 4:15pm
