Re: Particle tracking with defaults

Posted by jerie on Dec 21, 2016; 9:51pm
URL: http://imagej.273.s1.nabble.com/Particle-tracking-with-defaults-tp5017796p5017804.html

Hi Philippe,

I tried the following, if that is sufficient will depend on later analysis
---
selectWindow("Stack1.tif");
run("Non-local Means Denoising", "sigma=15 smoothing_factor=1 auto stack");
run("Subtract Background...", "rolling=0.1 sliding stack");
run("Bandpass Filter...", "filter_large=9 filter_small=0 suppress=None
tolerance=5 process");
setAutoThreshold("Otsu dark stack");
run("Analyze Particles...", "size=5-50 circularity=0.70-1.00 show=Masks
summarize stack");
---

Abraços, Jens

Dr. Jens Rietdorf, visiting scientist @ center for technological
development in health CDTS, Oswaldo Cruz Foundation Fiocruz, Rio de Janeiro
Brasil.

On Tue, Dec 20, 2016 at 1:14 PM, Philippe CARL <[hidden email]>
wrote:

> Dear all,
>
> I would like to track some fluorescent beads displacements within pictures
> like these examples:
>
> http://punias.free.fr/ImageJ/Stack1.tif
>
> or
>
> http://punias.free.fr/ImageJ/Stack2.tif
>
> But very unfortunately besides the beads signals, I have as well some
> undetermined fluorescent sources within the pictures which are quite
> disturbing the analysis.
>
> Thus would somebody of you have an idea on how to clean out this unwanted
> signal or on the contrary how to only isolate the beads positions within
> the
> pictures?
>
> I thank you very much in advance for your help and suggestions.
>
> My best regards,
>
> Philippe
>
>
>
> Philippe CARL
>
> Laboratoire de Biophotonique et Pharmacologie
>
> UMR 7213 CNRS - Université de Strasbourg
>
> Faculté de Pharmacie
>
> 74 route du Rhin
>
> 67401 ILLKIRCH
>
> Tel : [phone]
>
>
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> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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