Colour extraction using Image J

[amhaughey]

Hi,

I have been using Image J to analyse images of a fluorescent molecule taken in
ambient light (it is not possible to capture the images in complete darkness).
In the images that are obtained it is impossible to see the fluorescent light.
So far I have been taking an image of the source when there is fluorescence
present and then taking a second image after the fluorescence has decayed.  I
then use Image J to subtract the two images.  This has been working well, I can
see the fluorescent light.  However, things like reflections interfere with the
results as these can show up as bright patches in the subtracted image masking
the true results.

Ideally I would like to be able to extract the light (wavelength, or waveband)
of interest from the image.  Is there a way of doing this with Image J?

I would greatly appreciate any help that anyone can offer or suggestions for
another type of software that could do this if Image J does not have these
capibilities.

Thanks,

Anne-Marie

[Carl Sebeny]

Is it possible to attach  a band pass filter to the camera lens that
blocks all frequencies other than those associated with the fluorescence?
Can higher intensity images be obtained using extended integration time
for the camera? A polarizing filter may reduce reflections.

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of amhaughey
Sent: Friday, April 18, 2008 11:37 AM
To: [hidden email]
Subject: Colour extraction using Image J

Hi,

I have been using Image J to analyse images of a fluorescent molecule taken
in
ambient light (it is not possible to capture the images in complete
darkness).
In the images that are obtained it is impossible to see the fluorescent
light.
So far I have been taking an image of the source when there is fluorescence
present and then taking a second image after the fluorescence has decayed.
I
then use Image J to subtract the two images.  This has been working well, I
can
see the fluorescent light.  However, things like reflections interfere with
the
results as these can show up as bright patches in the subtracted image
masking
the true results.

Ideally I would like to be able to extract the light (wavelength, or
waveband)
of interest from the image.  Is there a way of doing this with Image J?

I would greatly appreciate any help that anyone can offer or suggestions for
another type of software that could do this if Image J does not have these
capibilities.

Thanks,

Anne-Marie
--
View this message in context: http://www.nabble.com/Colour-extraction-using-Image-J-tp16763514p16763514.html
Sent from the ImageJ mailing list archive at Nabble.com.

[Joachim Wesner]

Hi there,

I think the original poster was more likely interested in a
software-only/mostly solution!

However, some color-support in hardware needs to be there. If you have a
color image/camera,
there was an announcement of a "color deconvolution plugin" sometime ago in
this
forum, that can extract certain "color patterns" from images IIRC.

You should searchh the forum or look in the plugins dirctory.

https://list.nih.gov/cgi-bin/wa?S1=imagej

http://rsb.info.nih.gov/ij/plugins/

In case of a monochrom camera, no luck!
.
Hope this helps!

Cheers, Joachim


ImageJ Interest Group <[hidden email]> schrieb am 18.04.2008 19:02:49:

> Is it possible to attach  a band pass filter to the camera lens that
> blocks all frequencies other than those associated with the fluorescence?
> Can higher intensity images be obtained using extended integration time
> for the camera? A polarizing filter may reduce reflections.
>
> -----Original Message-----
> From: ImageJ Interest Group [mailto:[hidden email]] On Behalf
> Of amhaughey
> Sent: Friday, April 18, 2008 11:37 AM
> To: [hidden email]
> Subject: Colour extraction using Image J
>
> Hi,
>
> I have been using Image J to analyse images of a fluorescent molecule

taken
> in
> ambient light (it is not possible to capture the images in complete
> darkness).
> In the images that are obtained it is impossible to see the fluorescent
> light.
> So far I have been taking an image of the source when there is
fluorescence
> present and then taking a second image after the fluorescence has
decayed.
> I
> then use Image J to subtract the two images.  This has been working well,
I
> can
> see the fluorescent light.  However, things like reflections interfere
with

> the
> results as these can show up as bright patches in the subtracted image
> masking
> the true results.
>
> Ideally I would like to be able to extract the light (wavelength, or
> waveband)
> of interest from the image.  Is there a way of doing this with Image J?
>
> I would greatly appreciate any help that anyone can offer or suggestions

for
> another type of software that could do this if Image J does not have
these
> capibilities.
>
> Thanks,
>
> Anne-Marie
> --
> View this message in context: http://www.nabble.com/Colour-
> extraction-using-Image-J-tp16763514p16763514.html
> Sent from the ImageJ mailing list archive at Nabble.com.


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