I have a z-stack of one channel, and a separate 3-channel z-stack. I would like to merge these so that I get a 4-channel image, with the three channels from one stack and the fourth from the other stack. I would need to make sure each image matches up in terms of z location ( so image 1 of channel 1 matches image 1 of all other channels).
Any ideas?
Thanks
As long as the stack files are the same dimensions, bit depth, and the z planes correspond between files, I would do this:
First, split the three channels into individual stacks (Image-Color-Split Channels) so you have those plus the fourth channel stack.
Then, recombine all four (Image-Color-Merge Channels).
Chris
Christopher is right, thumbs up. If you are using an earlier version of ImageJ you might not have to many options in the Image-> Color -> merge channels menu. You should update or use one of the plugins. For all other stack manipulations this is a great resource.
http://imagej.net/mbf/stack.htm
Best Soenke
Hi! Maybe you could also try to concatenate the stacks using:
Image > Stacks > Tools > Concatenate...
Good luck! :D
the following the batch merge macro for two channels. you can add two more channels in macro to get 4-channel image stacks.
input = getDirectory("Choose an input directory");
output = getDirectory("Choose an output directory");
processFolder(input);
function processFolder(dir) {
list = getFileList(dir);
for (i=0; i
Hi,
I need help to overlay a confocal image (the image has 42 z-stack) to get full projection of my cells on porous 3D scaffold. Maximum projection didn't help.
You can use imagej 3D viewer to get freely rotated 3D image. Or, use orthogonal view to get xz and yz projected views
use image > stack, and change images to stack , later
use image > Hyperstack >
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