Posted by
Ed Simmons on
Jan 29, 2014; 5:40pm
URL: http://imagej.273.s1.nabble.com/SKM-Cross-sectional-area-measurement-tp5006330p5006332.html
On 29/01/2014 14:37, stevefaulkner wrote:
> Hi,
>
> I am trying to calculate the cross sectional area of skeletal muscle fibers
> obtained via muscle biopsy. I have tried to generate an automated macro but
> with little success. Given the large number of sections that I will have,
> and automated steps will make things a lot better and reduce error.
>
> Thanks for your advise.
>
Hi Steve,
Please could we see a sample image? I assume that you'd want to start by
isolating the areas you wish to measure somehow.
Usually, blurring then thresholding works well if the area of interest
is clearly defined against the background. Once you know the steps to
reliably separate the regions to measure, it should be simple to use
analyse particles to measure the area.
The macro recorder is very useful as a history while you're testing
things out on some sample images. Once you've got the method worked out,
you can copy and paste the relevant bits into a new macro.
How are your results presented? Do you have a folder full of images or a
stack? Your macro can process either, but the method differs.
Hopefully you'll glean some useful info from a similar topic that
prompted a post on our website:
http://www.esimagingsolutions.com/resources/case-studies/119-case-study-labelling-a-moving-object-in-an-image-stack-with-imagej-macroLet us know if you're still stuck!
Best,
Ed
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