This macro converts them to 8 bit RGB color. ImageJ / Fiji allows you to arbitrarily assign any channel to any colour, making each focal plane either a composite or an RGB image. Raw data used in this webpage downloadable here.Ĭolor brightfield images are often collected by taking red, green, and blue individual images and saving them in series. If you want automation like this, please contact me. Here is a sample macro that changes the colors of channels of a single Z slice file with a single click or keystroke and automatically montages the channels. The displayed channels (and colors and contrast ranges) may be programmed in a macro so that they do not have to be manually set for each image that is opened. The color of any channel may be changed without altering the raw data by making the channel active and then using Image > Lookup Tables. The pixel value at the cursor location diplayed in the status bar and measured intensity values are of the active channel exclusively. The active channel may be changed by moving the "C" slider and the color of the active channel is displayed as the text color at the top of the image. The contrast of each channel may be adjusted independently using the Image > Adjust > Brightness/Contrast tool. The check boxes turn displayed channels on and off. To display mutiple colors at once, use Image > Color > Channels Tools to select which channels you want to see. It may be displayed as the first Z slice in the first channel. This preserves original bit depth, dynamic range, and color LUTs. When you first import a multichannel Z series into ImageJ or FIJI is should be a hyperstack of multiple channels and multiple Z slices.
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