Previous Message | Next Message Previous in Topic | Next in Topic Previous by Same Author | Next by Same Author Previous Page (May 2002) | Back to Main IMAGEJ Page
	Reply | Post a New Message | Join or Leave IMAGEJ, or Change Options | Search
	Chronologically | Most Recent First | Wrap Text (Proportional Font) | Don't Wrap Text (Non-proportional Font)

References: <[log in to unmask]>
            <[log in to unmask]>
Content-Type: text/plain; charset=us-ascii; x-mac-type="54455854";
              x-mac-creator="4D4F5353"
Message-ID:  <[log in to unmask]>
Date:         Sat, 11 May 2002 09:50:06 -0700
Reply-To:     [log in to unmask]
Sender:       ImageJ Interest Group <[log in to unmask]>
From:         Bob Dougherty <[log in to unmask]>
Organization: OptiNav, Inc.
Subject:      Re: interference filter plugin

Joachim and Dr. Diez-Guerra,

There is a plugin to do this at

http://www.optinav.com/ImageJplugins/BandPass.htm

It is based more on Joachim's suggestion than my similar but slighly later
version (I didn't know about Joachim's message when I sent mine.)

Please let me know how/if it works.

Bob

Joachim Walter wrote:

> For a simple start you could try to convert the image to an HSB stack,
> segment the "Hue" and convert back to RGB.
> The procedure I tried (maybe there is a simpler one):
> - Convert the RGB image to HSB with Image->Type->HSB Stack
> - Duplicate the first slice (Hue) with Image->Duplicate
> - Threshold the duplicated slice (with Image->Adjust->Threshold),
>   so that hues, which you want to keep become white (255) and the rest
> is black (0).
> - Divide the thresholded image by 255 (Process->Math->Divide) to get a
>   mask image with values of 0 and 1.
> - Multiply the HSB stack with the mask (Process->Image Calculator,
> process
>   all slices)
> - Convert the HSB stack back to an RGB image (Image->Type->RGB)
>
> Again, maybe there is a simpler way to create the mask that I don't know
> of.
> The same procedure can be applied to stacks with the HSB-Stack-Splitter
> plugin. Just for the last step (converting HSB back to RGB) there seems
> to be no HSB-merge plugin.
>
> Good luck, Joachim
>
> F Javier Diez Guerra schrieb:
> >
> > Dear Martin,
> >
> > I am not looking for a plugin that substitutes for a physical filter.
> >
> > Imagine that you have captured beautiful fluorescence frames from
> > GFP-fusioned protein with a color camera. In addition to bright green
> > stained cells, you also observe that most cells have an orange-yellowish
> > staining because of a treatment with a protein kinase inhibitor that shows
> > some fluorescence.
> >
> > In order to remove the orange background staining, I understand that the
> > best approach is to use a narrow-band emission filter in the cube. This is
> > something that we definitely will try once we get such filter.
> >
> > In the meantime, we have these beautiful time-lapsed images that we would
> > like to enhance. If the background color were red instead of orange, we all
> > would consider appropriate to separate RGB channels and then pick the green
> > one. However, RGB channel separation does not render proper background
> > removal in this case.
> >
> > So my question:
> > Is there any way (or plugin) of post-processing such images to remove the
> > orange background while maintaining the green signal?
> >
> > Thanks,
>
> --
> ------------------------------------------------------------------
>   Joachim Walter
>   Till ID
>   c\o Bioimaging Zentrum
>   Am Klopferspitz 19
>   82152 Martinsried, Germany
>
>   Tel.: +49-89-899232-35
>   Fax:  +49-89-899232-10
>
>   [log in to unmask]
> ------------------------------------------------------------------

--
Robert Dougherty
President, OptiNav, Inc.
(425) 467-1118
[log in to unmask]
http://www.optinav.com

Center for Information Technology National Institutes of Health Bethesda, Maryland 20892 301 594 6248 (v) 301 496 8294 (TDD) Comments and Assistance Accessibility