http://imagej.273.s1.nabble.com/Convex-Hull-BG-a-new-background-subtraction-algorithm-tp5016900p5016915.html
Thank you Jan. I merged your PR on github
deeply. I will do that in short time.
> Dear Koen,
>
> that's a nice plugin. I suggest that you also create an update site [1]
> for it, so it's easier for users to install it.
>
> To facilitate this, I transformed your github code into a Maven project
> [2]. This avoids packaging the dependencies of this plugin into a single
> uber-jar, which can lead to possible version skews when being used together
> with other plugins that depend on different versions of the same
> dependencies. Maven helps to manage these dependency versions, and makes
> installing your plugin easy:
>
> mvn -Dimagej.app.directory=C:\Path\to\Your\ImageJ.app
>
> This will install the jar file and its dependencies into your existing
> installation.
> Additionally, if you use the updater to upload the plugin to an update
> site, it will also know about the requires dependencies.
>
>
> Best,
> Jan
>
> [1]:
http://imagej.net/Update_Sites> [2]:
https://github.com/kvdijken/CHBG/pull/1>
>
>
>
> On 19.07.2016 00:24, Koen van dijken wrote:
>
>> I created a Github repository with the sources for the plugin. Besides the
>> sources there are some remnants of the Eclipse-project in the github
>> repository. This is because I am a new 'push'-user of github and still
>> finding my way.
>>
>> The url for the repository is:
>>
>>
https://github.com/kvdijken/CHBG>>
>> Also the sources for JSI and QuickHull3D are in the repository.
>>
>> Koen
>>
>>
>> On Mon, Jul 18, 2016 at 12:29 PM, Michael Schmid <
[hidden email]
>> >
>> wrote:
>>
>> Hi Koen,
>>>
>>> the convex hull is a good background subtraction algorithm if the
>>> background is convex, which is usually the case in brightfield light
>>> microscopy. Unfortunately I could not try your plugin (I don't have Java
>>> 1.8).
>>>
>>> I think that the concept is not entirely new, this paper describes a
>>> similar approach (though different implementation):
>>>
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3433711/>>>
>>> You can do something that comes very close to it with ImageJ:
>>> In 'Subtract Background', select 'Sliding Paraboloid' and a very large
>>> radius (1000000 does not hurt). This gives a reasonably good
>>> approximation
>>> of the convex hull. (It is an approximation not only because the radius
>>> is
>>> finite but more so because it simplifies the problem from 2D to several
>>> passes of 1D lines across the image, for increased computing speed).
>>>
>>> For color images you should have 'Separate Colors' enabled, then you
>>> don't
>>> need to do the detour via a composite image.
>>>
>>> Michael
>>> ________________________________________________________________
>>>
>>> On 2016-07-17 16:10, Koen van dijken wrote:
>>>
>>> Hi fellow ImageJ users,
>>>>
>>>> Last week I've been programming a background subtracter which is based
>>>> on
>>>> another algorithm which I devised myself. I have not heard of it before.
>>>> It
>>>> is based on building a 3D Convex Hull over the image's intensity
>>>> profile.
>>>>
>>>> I created a document about the motivation for building it, its workings,
>>>> its characteristics, how to use etc. Because the listserver will not let
>>>> me
>>>> attach pdf's, here is a link to it on my dropbox:
>>>>
>>>>
https://www.dropbox.com/s/rubady3rv9yyxdv/Convex%20Hull%20BG.pdf?dl=0>>>>
>>>> Because gmail will not let me attach jars, here is a link to it on my
>>>> dropbox:
>>>>
>>>>
https://www.dropbox.com/s/1pxbney44su19e6/Convex_Hull_BG-0.9.jar?dl=0>>>>
>>>> Have fun trying it, and if you find any issues with it, please mail.
>>>>
>>>> Koen van Dijken
>>>> Groningen, The Netherlands
>>>>
>>>> --
>>>> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>>>>
>>>>
>>>> --
>>> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>>>
>>>
>> --
>> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>>
>>