![]() Thresholding and colony quantification using Colony_area: This option allows the user to analyze only a subsection of the plate if desired. The selection should be done in such a way that the sides of the rectangle touch the outer walls of the wells. (With an acceptable error of about 1-1.5 degrees max.) Then click on “OK”.Īfter the image has been straightened, use the “Rectangular Selection” tool from the ImageJ toolbar to make a selection of a region of interest (ROI) containing the wells you want to process (See Fig.
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