sequential batch subtraction

[Mottlab]

Hi everyone, here's my situation:

I run tests on stomatal responses and aquire over 500 images per day in a single folder, and I need to create sequential difference images.

Basically, I need to batch subract image 1 from image 2, then image 2 from image 3, and image 3 from image 4, and so on for all 500 images, add false color, then save them all to a new folder.

Is there a plugin I could use, or a macro? I'm new to ImageJ and don't know where to begin.

Thanks for the help,
Lauren

[Pariksheet Nanda]

On Fri, Aug 9, 2013 at 12:55 PM, Mottlab <[hidden email]> wrote:
> I need to batch subract image 1 from image 2, then image 2 from
> image 3, and image 3 from image 4, and so on for all 500 images, add false
> color, then save them all to a new folder.
>
> Is there a plugin I could use, or a macro? I'm new to ImageJ and don't know
> where to begin.
>

You can do this with the normal ImageJ commands:

1) Import your data as as stack; try using:
    File > Import > Image Sequence.

2) Create a copy with
    Image > Duplicate (enable the "Duplicate stack" option)

3) Scroll to the last image in the original copy (let's call it) Stack 1, and
    Image > Stacks > Delete slice
... similarly delete the first image in the duplicate copy, Stack 2

4) Subtract Stack 2 from Stack 1 using:
    Process > Image Calculator
.. select "float result" if you want to see negative and positive differences.

If this gives the desired result, to automate this into a macro, run:
    Plugins > Macros > Record


> Lauren

Pariksheet

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