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JohnnyR

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About JohnnyR

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  1. It is cell samples from the retina of rats. Thanks for your suggestion. I'm not familiar with imagemagick but I'll sure have a look at it now.
  2. I am a developmental biologist carrying out experiments on a type of microscope known as a Confocal Laser Scanning Microscope (CSLM). Basically, this is a microscope coupled to some lasers which allow fluorescently-labelled parts of a biological sample to be imaged in high detail. For each sample there will be a set of two images produced, named and numbered as follows: sample01_g.tif sample01_r.tif Each image represents one fluorescent wavelength and correspond to green ( g ) and red ( r ). These images are in rgb colour. I want to produce a merge of these two channels to generate a new TIFF file such that: Green channel is taken from sample01_g.tif Red channel is taken from sample01_r.tif Which would show me how the different channels co-localise, or not. This is fine to do by hand in Photoshop, but takes a long time when you have a couple of hundred images to process. So, what I would like to do is write a script that batch automates the process, like a droplet. I have the process outlined below: 1. Create a new RGB TIFF called sample01_merge.tif 2. Take the green channel from sample01_g.tif and copy it to the green channel of sample01_merge.tif 3. Take the red channel from sample01_r.tif and copy it to the red channel of sample01_merge.tif 4. Save sample01_merge.tif into a folder named "Merged Images" on the desktop 5. Close the opened images 6. Go to next set of images –> sample02_g.tif and sample02_r.tif 7. Create a new RGB TIFF called sample02_merge.tif....and go through step 2-6, untill the last set of images has been processed. I have never used Applescript before and would love to learn, but I am making slow progress and would like to have this problem solved sooner than I will be able to do so by myself. So... I was wondering if anyone could give me some advice on how to go about doing this? Any help will be greatly appreciated! Best regards, John
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