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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 pluginJoachim 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
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