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The way in which Composite mode works is that an RGB image is effectively created for each channel based on its LUT, and the red, green and blue values are added together to get the final output color (clipping at 255 if needed). Using the Image ‣ Color ‣ Channels Tool… and the slider at the bottom of the window, you can view the channels individually or simultaneously. 32 ImageJ multichannel image sample Fluorescent Cells.
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Similarly, Image ‣ Adjust ‣ Brightness/Contrast… works on the active channel to update the LUT.įig. Whenever a channel is active, the LUT can be changed using options in the Channels Tool dialog – or the Image ‣ Lookup Tables ‣ submenu as usual. Grayscale – Similar to Color, except always using a grayscale LUT. You can switch the channel with the slider below the image. Individual channels can be turned on and off.Ĭolor – View the ‘active’ channel only, using its original color LUT.
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Currently, this works with up to 7 or 8 channels (depending on software version an extra one was added recently). ImageJ has three main modes for displaying multichannel images, accessible from the drop-down menu of the Channels Tool dialog:Ĭomposite – Merge some or all the channels together for display. To be more precise, a ‘composite image’ in this context is a multichannel image that is displayed using a particular display mode. The question might be a little bit confusing because ‘composite’ and ‘multichannel’ do not quite mean the same thing, although they are sometimes used interchangeably with ImageJ. If you run the Channels Tool… command for an RGB image and try to do anything, ImageJ will askĪgreeing to the prompt will convert the RGB image to a multichannel image. One of the most useful commands that requires some explanation is Image ‣ Color ‣ Channels Tool… Shift+ Z. Some of these, such as Image ‣ Color ‣ Split channels and Image ‣ Color ‣ Merge channels are quite intuitive, and work for both RGB and multichannel images. There are several useful commands for working with color channels under Image ‣ Color ‣.
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When it comes to measuring an RGB image, the enigmatic statement above that ImageJ ‘converts the image’ is explained (in more detail than you might want) at the end. It is not possible to change LUTs per channel Image ‣ Adjust ‣ Brightness/Contrast… can only be used to adjust the brightness & contrast for all channels simultaneously It is possible to change LUTs independently for each channelĪnalyze ‣ Measure converts the image to have a single 8-bit channel before making measurementsĪnalyze ‣ Histogram creates a histogram after converting the image as above, but also provides an RGB button to also view separate histograms for the red, green and blue channels Image ‣ Adjust ‣ Brightness/Contrast… can be used to adjust the brightness & contrast for the active channel The distinction is really important when it comes to measurements and histograms, because the behavior between RGB and multichannel images is subtly different:Īnalyze ‣ Measure uses the active channel only, based on the C sliderĪnalyze ‣ Histogram uses either uses the active channel only or all channels, after prompting the user to choose The colors used to display the image are identical, but other aspects of the image window indicate that the images themselves are quite different. 31 A multichannel image (left) and RGB image (right).