Re: point selection and counting procedure

Posted by Volker Baecker on
URL: http://imagej.273.s1.nabble.com/point-selection-and-counting-procedure-tp3701294p3701297.html

Hi,
just an idea: Can't you use the Roi Manager to save your point selection?
You select points. Now you want to measure a distance, so you add your
point selection to the roi manager. You make the line selection and
write the
distance to the results table. Then you restore your point roi from the
roi manager and you continue to add points (using shift).
When you finished, you measure the point roi and get your count as the
number of rows in the results table.
You could as well put line rois of a specific size into the roi manager
and use them as reference.

This is more a workaround then a real solution.
Maybe it would be possible to adapt the new version of the cell counter
plugin
http://rsb.info.nih.gov/ij/plugins/cell-counter.html
to allow for length measurements during the process of counting.

Hope this helps,
Volker
Thorsen, Anders a écrit :

> Hi,
>
> We are counting oocytes from whole mount pictures of fish ovaries. We are
> counting a lot of samples so our counting procedure should be as efficient
> as possible. The majority of the oocytes (the dark vitellogenic ones) are
> counted easily using the analyze particle function. However, after the
> particle analysis has been run there is still some oocytes that have not
> been counted. Mainly this is the previtellogenic oocytes that are
> transparent and difficult to threshold on. These oocytes have to be counted
> manually on the picture. I find using the point selection tool is in many
> cases efficient, however we should only count oocytes that are larger than
> 150 µm. That means that oocytes around this threshold value has to be
> measured using the line tool to decide wether it should be counted or not.
> Since this is a new type of measurement ImageJ then want to empty the
> results window to make room for the new type of data, and this makes it very
> cumbersome. We could of course do all the manual counting using the line
> tool, but that would take much more time and we have a lot of samples.
>
> I can think of two solutions to this: 1. Make ImageJ accept several types of
> measurements in the Results window at the same time. 2. Let the point
> selection tool (the cross) have a selectable size so that it can function as
> a size reference when doing the point selection. I have looked for plugins
> or macros that could help us with this but haven't found any. Is anybody
> aware of something that could solve this problem? Is there somthing I am
> doing wrong? Could a plugin be made to solve this?
>
> Background:
> We are an ICES working group that is responsible for making egg-production
> estimates for mackerel and horse-mackerel in the North Sea and Norwegian Sea
> from mature pre-spawning ovaries. The egg-production estimates are then
> compared to the amount of pelagic eggs of these species that is actually
> found (using plankton net) during the spawning season. From this the total
> spawner biomass is calculated, and this again makes an important basis for
> deciding the fishing quotas for these species.
>
> thank you
>
> anders
>
> ..................................
> Anders Thorsen
> Dr. Scient.
> Senior Scientist
> Recruitment Biology and Behaviour
> Institute of Marine Research
> Nordnesgaten 50
> P. O. Box 1870 Nordnes
> N-5817 Bergen, Norway
> Phone: [phone]
> Fax: [phone]
> E-mail: [hidden email]
>
>  

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