Re: Weka Trainable Segmentation alternative

Posted by Adrián Villalba on Jan 06, 2018; 10:24pm
URL: http://imagej.273.s1.nabble.com/Weka-Trainable-Segmentation-alternative-tp5019833p5019838.html

Dear Ignacio,

This is an example image with the different types of islets and insulitis.
The legend is the following:
A = grade 0, no insulitis; B = grade 1, peri-insular; C = grade 2, mild
insulitis (<25%
of the islet infiltrated); D = grade 3, moderate insulitis (25–75% of the
islet
infiltrated); E = grade 4, severe insulitis (>75% islet infiltration).

I would like to compare my template images against a new image
automatically, so i do not have to do it manually in the microscope. But
Weka has not been useful, first of all because Hematoxilin/Eosin staining
is not very different between islets and the rest of tissue. Moreover, the
different score of the 5 types of islets (scored from 0 to 4) is also
tricky for the Weka algorithm. Do you think i can use a different approach?


Thank you very much for your time and attention,

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2018-01-06 0:39 GMT+01:00 Adrián Villalba <[hidden email]>:

> Dear all,
>
> I am trying to use the Weka Trainable Segmentation plugin in order to
> classify islets of Langerhans in Hematoxilin/Eosin tissues. There are four
> different types of islets depending on insulitis (immune cell infiltration
> within the islet) as i show you in an attached JPG-picture (just to show
> you the expected result, not to manipulate).
>
> My goal is to do it automatically in imageJ, rather tan manual scoring of
> pictures. So i thought it would be a good idea to use the Trainable Weka
> Segmentation plugin just to train the algorithm to do it automatically but
> it fails. (I cannot attach the classifier.model archive because it is
> rejected by the mailing list conditions).
>
> I think that maybe it is not a proble for the Weka, instead being a
> conceptual problem and that maybe you could know another imageJ tool to
> pursuit that goal.
>
> Thank you very much in advance!
>
> --
>
>    - Adrián Villalba Felipe.
>    https://es.linkedin.com/in/adrianvillalba
>
>

--

   - Adrián Villalba Felipe.
   https://es.linkedin.com/in/adrianvillalba

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