Run the plugin and select the two images to be merged. You can perform a true merge if you turn off the “Difference” option. This is not strictly a merge (when cyan and magenta merge they produce white, not yellow) but facilitates visualization of the separate channels (See Demandolx and Davoust, J. The Colour_merge plugin gives the user the option of using the ‘difference’ arithmetic processing on the image stacks you select. This can aid visualization of colocalization due to our poor perception of red and green colors. This reduces 16-bit images to 8-bits (based on the current Brightness and Contrast values) then generates a 24-bit RGB image.Īn alternative to the normal Red-Green merge is to merge the images based on Cyan and Magenta, or Cyan-Yellow or any other color combination. The native Fiji function Image › Color › Merge Channels… can be used to merge red, green and/or blue channel images or Image Stacks The two stacks can then be merged via: Image › Color › RGB merge. You can also choose to check a box for whether or not the source stacks should be kept. This can be done with Image › Stacks › Tools › Deinterleave and entering the number of channels in the dialog (typically “2”). The stack needs to be “De-interleaved” before it can be RGB-merged. Slice 1 is Timepoint1-channel1 and Slice 2 is Timepoint1-channel2. Multi-channel experiments acquired on some systems are imported with the different channels interleaved, i.e. Merging multi-channel images Interleaved multi-channel experiments To convert it back to a composite you can use the menu command Image › Color › Make Composite. Sometime the composite can revert to a multi-slice stack. The disadvantage of the Composite image type is that this relatively recent Fiji development is not supported by all existing plugins.
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