> The devil is in the details. IF the cell walls are absolutely
> clean, then this has a chance of working. Even then, you may need a
> scene analysis layer to apply knowledge well beyond simple nucleus
> detection and region growing. Especially if some of the images
> (always the crucial ones) are "atypical".
>
> The bottom line is that every preparation and every experimental
> condition will require one of:
> A) very sophisticated custom computer vision techniques, or
> B) a human trained observer assisted by a custom program to do the
> bookkeeping and provide support for editing, or
> C) low standards ("any cockamamie scheme can get 85% right answers;
> 90% is cutting edge work; 95% is a career, and 98% is a pipe dream")
>
> When the customer's research depends on 99% correct measurements,
> spend your time on ease of editing and don't bet the farm on a fully
> automatic system.
>
> -Kenneth Sloan
> (von meinem iPhone4S gesendet)
>
>> On May 20, 2014, at 13:29, Mike Esterman <
[hidden email]> wrote:
>>
>> If you stain the nucleus and the cell membrane - there are a number
>> of fluorescent stains for the cell membrane- then locate the
>> nucleus of each cell and use a region growing algorithm until you
>> encounter the cell membrane of that cell. Since the cells are
>> varied in shape you will have to do this in various directions from
>> the nucleus. There is a program that does this but is very
>> expensive for a license - it is eCognition. If you or someone in
>> your group understands image processing and analysis you could
>> probably find references to region growing algorithms and write one
>> within ImageJ.
>>
>> Mike
>>
>>
>> -----Original Message-----
>> From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf
>> Of Fabrice Senger
>> Sent: Tuesday, May 20, 2014 11:52 AM
>> To:
[hidden email]
>> Subject: Re: Segmentation of confluent cells
>>
>> Hi,
>>
>> I would try a membrane marker : wheat germ agglutinins or DiD
>> lypophilic stain (works with living cells...)
>>
>> Fabrice.
>>
>>
>> 2014-05-19 13:14 GMT+02:00 Matthew Pearson <
[hidden email]
>> >:
>>
>>> Hi all,
>>>
>>> I've been asked whether its possible to measure the area of
>>> individual
>>> cells in a confluent monolayer autonomously. As far as i'm aware
>>> this
>>> would be near impossible with brightfield techniques so i have
>>> suggested the cells are fixed and stained but i was wondering which
>>> structures would be best to label to give us the best chance of
>>> being
>>> able to do the analysis using ImageJ. I was thinking the nucleus
>>> and
>>> some kind of cell junction marker would be best. I'm not sure a
>>> cytoplasmic marker would add much if the cells are all touching.
>>>
>>> As far as analysis goes, my knowledge of segmentation and separating
>>> objects goes as far as the basic thresholding and morphological
>>> operators erosion, dilation, watershed etc. Are there any good
>>> specific tools/plugins for this kind of work? And are there other
>>> more advanced methods of segmentation of separating touching objects
>>> available? Perhaps something like level sets would be good for
>>> this? I
>>> think the basis of my approach would be nucleus identification to
>>> pinpoint a single cell, cell junction enhancement and final
>>> segmentation of some kind.
>>>
>>> Thanks for the advice,
>>>
>>> Matt
>>>
>>>
>>>
>>>
>>>
>>>
>>>
>>>
>>>
>>>
>>>
>>>
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>>> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>>>
>>> The University of Edinburgh is a charitable body, registered in
>>> Scotland, with registration number SC005336.
>>>
>>> --
>>> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>>
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