using Image J to create identical shapes for intensity analysis

[angela01]

Hi everyone,

I have previously stained some gels containing cells, and now wish to observe the intensity of these. My gels are roughly the same size, but there are some outliers so I wish to take a square section of each gel from the midde and cut this to ensure all my samples are the same size for further analysis.

I have used the rectangular tool to try and get the same size of square using the width and height measurements, but there is a small amount of variation even though the dimensions are the same throughout.

Is there a way to create a square shape that I can place on top of my images, cut the highlighted section and save this as a new JPEG, without altering the size of my chosen square. Every time I try the yellow box disappears and I must start again.

Thanks,
A

[Christine Labno-2]

Hi,

You can use the Edit -> Selection -> Specify command to create an ROI of a specific width/height, and then drag it into position over the area of the image you want to crop.  

You could also open an image, draw a region, open a second image, and use the Edit -> Selection -> Restore Selection command to transfer the region to the new image before cropping both images.    

Best,
Christine
--------------------------------------------
Christine Labno, Ph.D.
Asst. Technical Director
Light Microscopy Core
University of Chicago
Office of Shared Research Facilities
KCBD 1250 900 E. 57th St.
[phone] (phone)

________________________________________
From: ImageJ Interest Group [[hidden email]] on behalf of angela01 [[hidden email]]
Sent: Monday, August 25, 2014 1:33 PM
To: [hidden email]
Subject: using Image J to create identical shapes for intensity analysis

Hi everyone,

I have previously stained some gels containing cells, and now wish to
observe the intensity of these. My gels are roughly the same size, but there
are some outliers so I wish to take a square section of each gel from the
midde and cut this to ensure all my samples are the same size for further
analysis.

I have used the rectangular tool to try and get the same size of square
using the width and height measurements, but there is a small amount of
variation even though the dimensions are the same throughout.

Is there a way to create a square shape that I can place on top of my
images, cut the highlighted section and save this as a new JPEG, without
altering the size of my chosen square. Every time I try the yellow box
disappears and I must start again.

Thanks,
A



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