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Re: Chromatic shift correction

Posted by Saalfeld, Stephan on Nov 28, 2016; 9:23pm
URL: http://imagej.273.s1.nabble.com/Chromatic-shift-correction-tp5017645p5017646.html

Hi Rafael,

we developed such a method recently and I generated a slightly
premature screen capture how to do it.  Instead of polishing it
further, we decided to upload the screen cast to Youtube

https://www.youtube.com/watch?v=lPt-WQuniUs

and link the relevant scripts and examples on GitHub

https://github.com/saalfeldlab/confocal-lens/tree/master/scripts

You will need a dense textured sample that looks approximately the same
over the entire spectrum and image it as a 4x4 mosaic of ~60%
overlapping tiles.  We used beads.

Best,
Stephan


On Mon, 2016-11-28 at 15:08 -0500, Rafael Buono wrote:

> Dear list,
>
> I am working on a dual camera spinning disk system and would like to
> use ImageJ to correct for chromatic shift between the two channels
> (the two cameras).
> I have data from fluorescent beads and would like to use this data to
> calculate the shifts (and potential warping) between the channels and
> apply the necessary transformations to my data (dual channel, z-
> stack, time course datasets). Is there a plugin that can do this?
>
> I have read the entry on imagej.net ( http://imagej.net/Chromatic_shi
> ft_origins_measurement_and_correction ), but I have not found an
> automated way to get ImageJ to use the bead data to apply corrections
> to my actual data. How are you handling this type of problem (having
> to correct for chromatic shifts between channels)?
>
> Best,
>
> Rafael Buono
>
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