Re: calculating DF/F and movement correction

Posted by Krs5 on Aug 10, 2012; 3:56pm
URL: http://imagej.273.s1.nabble.com/calculating-DF-F-and-movement-correction-tp4999726p4999729.html

Did you have a look at the image stabilizer plugin (http://www.kangli.org/code/Image_Stabilizer.html)?

Kees


Dr Ir K.R. Straatman
Senior Experimental Officer
Centre for Core Biotechnology Services
University of Leicester
http://www.le.ac.uk/biochem/microscopy/home.html



-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Jacob Keller
Sent: 10 August 2012 16:35
To: [hidden email]
Subject: Re: calculating DF/F and movement correction

If you get an answer for the movement correction question, I would love to
hear it--I have been trying to do this for some time. You can try StackReg,
but for me, since it works by a "moving window" approach to image
alignment, errors seem to accumulate and the sample moves slowly over
hundreds of images. If there were some way to align each image to a "master
image" that would be much better for our purposes.

Jacob


On Fri, Aug 10, 2012 at 9:28 AM, Nicolás Pírez <[hidden email]>wrote:

> Dear List,
>
>
>
> I am new at using ImageJ. I am using it to measure the changes in
> fluorescence in a stack (time lapse). I have been using the ROIManager and
> Multimeassure to obtain the fluorescence levels.
>
> I have two questions: is there a function to calculate the DF/F
> automatically? - eg: [(Fn/F0)/F0]X100%.
>
>
>
> Additionally, I would like to be able to measure this value even in where
> is some drift in the ROI across different slices in the stack (all images
> are of the same field, but there is some movement X-Y). Is there a movement
> correct function, so that the ROI can "follow" the movement?
>
>
>
> Thanks a lot,
>
>
> Nicolás Pírez.
>
> --
> Nicolás Pírez, Ph.D.
> [hidden email]
>
> Fundación Instituto Leloir, Lab. 109.
> Av. Patricias Argentinas 435
> Ciudad de Buenos Aires (C1405BWE)
> Argentina
> Phone [phone] ext: 2109
> Fax [phone]
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
*******************************************
Jacob Pearson Keller
Northwestern University
Medical Scientist Training Program
email: [hidden email]
*******************************************

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