Re: Analysing nerve sections...!?
From: Chuck Dillon (spam_at_nimblegen.com)
Date: 12/27/04
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Date: Mon, 27 Dec 2004 09:49:35 -0600
Gopsworth wrote:
>
> This is the 21st century! There HAS to be a better way of automating
> this process!!
>
> Now I know most photo editing software will be able to generate an
> outline of an image from a photo - in this case, it should be able to
> convert photos of my nerve slides to an image of lots of little
> circles. What I then need is some way of counting those little circles
> and working out their areas.
>
> Does anyone have any suggestions?!!
The question is whether or not there is sufficient information in the
image(s) to allow software to isolate the features you need to measure
from the noise (which is everything else). Whether it is possible or
with what steps it is possible is always specific to the problem and
the data so all I can suggest is that you investigate it from that
perspective or hire (collaborate with) someone who has experience with
this kind of problem and can investigate it for you.
To give you a feel for the issues I suggest you get ImageJ (public
domain) from http://rsb.info.nih.gov/ij/ and use it to investigate your
problem. You need to determine if you can use it's gray scale
processing and thresholding functions to isolate the features in a
binary image. Binary meaning the pixels are either your features or
not. ImageJ includes a general purpose "analyze particles" function
that you can use to get standard morphology measurements from binary
images.
HTH,
-- ced
-- Chuck Dillon Senior Software Engineer NimbleGen Systems Inc.
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