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@nkoutroumanis The java.awt.image API lets you create BufferedImage objects with alpha channel. See e.g. this SO post. But that is not really specific to Trainable Weka Segmentation or ImageJ. Are you asking how to make TWS spit out an image at a different opacity? The short answer is: you can't, but you can paint the TWS output image onto a BufferedImage at 50% opacity as described in the link.
How can i create result of an image with 50% opacity through Java?
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