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Re: HELP needed from IMAGEJ to Photoshop

Posted by Jerry (Gerald) Sedgewick on Aug 28, 2013; 3:33pm
URL: http://imagej.273.s1.nabble.com/HELP-needed-from-IMAGEJ-to-Photoshop-tp5004584p5004597.html

It's easiest to convert your image to RGB in Image J.  It would likely go
fastest.  But if it is a fluorescence image, and you want to convert in
Photoshop, you can do that in 2 steps:

1. Convert to RGB Color (Image> Mode> RGB Color)
2. In the Levels dialog box, make the two channels you *don't* want to a
level of zero (0).  For example, if you want the grayscale image to be Red,
under Image > Adjustment > Levels, in the Levels dialog box, click on the
Channels drop down and choose the Green channel.  In the Output Levels
portion of the dialog box (the bottommost slider), type "0" into the right
hand box.  Then do the same with the Blue channel.  This will leave you
with red.

If you record an action (macro) while doing this, you can assign an F key,
and then hit the F key to do this to all other images.  This can be done in
the Actions palette (Window > Actions).  Or you can make what is called a
droplet (File > Automate > Create Droplet). You can create a droplet, put
it on your desktop, and then drag all pertinent images into it to batch
this action.

Photoshop is worth using when automating functions.

Good luck!
Jerry


On Wed, Aug 28, 2013 at 6:43 AM, Johannes Koch <[hidden email]> wrote:

> I am not sure, if  I understand your question properly.
>
> Please look up (just google it) the usability of LUTs (look-up tables).
> Unless you record with an RGB camera, usually your images ARE grayscale.
> For visibility reasons (i.e. looking simultaneously at 2/3 images aka
> channels), the channels representing different fluorophores are colorized.
> This is artificial and has absolutely no relevance.
>
> When you save your ImageJ image with three DIFFERENT channels as tiff, it
> is saved as multilayer tiff. I dont know what to do with that in Photoshop,
> but a wild guess would be to work on the layer concept, put each channel in
> a separate layer and apply the color (aka Lookup) you want.
>
> Surely, it would be better to convert your image to RGB in ImageJ and then
> save it. Again, my guess would be that the splitting operation in photoshop
> would now represent the proper colors, given that you had R,G and B as
> separate channels in the original image. If you had  cyan, magenta and
> yellow, then a RGB split would not work.
>
> Maybe my answer provided some keywords that help you to look further.
>
> cheers,
> Johannes
>
>
>
>
> *Dr. Johannes Koch*
>
> *Tissue Med Biosciences GmbH*
>
> Magnesitstrasse1 | A-3500 Krems
>
> T: +43/2732/87470-300 | M: [hidden email] <mailto:
> [hidden email]>
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> Am 28.08.2013 09:33, schrieb Duleep Samuel:
>
>  if you can save as jpg in ImageJ then photoshop will open in color,Samuel,
>> Bangalore, India
>>
>>
>> On Wed, Aug 28, 2013 at 12:53 PM, Dionysios Lefkaditis <
>> [hidden email]
>>
>>> wrote:
>>> Hi balloo02,
>>>
>>> While I am not a Photoshop user, I am pretty sure that what you are
>>> seeing
>>> is correct. I will try to give you an answer in simple words. When you
>>> split an image into its colour channels, they essentially become single
>>> channel (greyscale) images. So when opening them in Photoshop, there is
>>> no
>>> way that that application knows that the image opened used to be a colour
>>> component of colour image. Are the images identical to each other, or
>>> they
>>> are slightly different? Of course that heavily depends on what was your
>>> original image. Try to merge the colour channel images back to a colour
>>> image and check if that will give you your original image. Hope that
>>> helps...
>>>
>>> cheers!
>>>
>>>
>>> On Wed 28 Aug 2013 04:36:05 AM CEST, balloo02 . wrote:
>>>
>>>  Hi, I am in dire need of help with converting imagej files that are
>>>> saved
>>>> as TIFF files to viewing them in Photoshop. In IMAGEJ,  my images have 3
>>>> separate channels (blue, red, green). My problem is that when I view the
>>>> split images in photoshop they are gre,.  Instead of my split images
>>>>   being
>>>> blue, red, or green like  when I saved them as TIFF files from IMAGEJ
>>>> they
>>>> are now grey. Furthermore, when I open those same files "turned" grey
>>>> back
>>>> in image they are now grey instead of being their original color (blue
>>>> red
>>>> or green). Can someone please help? Thank you
>>>>
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--
Jerry (Gerald) Sedgewick
quickphotoshop.com
http://www.imagingandanalysis.com
Author: "Scientific Imaging with Photoshop: Methods, Measurement and Ouput"

Automated Image Measurement services and systems; On-Site and on-line
training for image acquisition/processing/quantitation in science,
microscopy and medicine.

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