Re: analyzing spine dynamics in ImageJ

Posted by Michael Schell on Oct 27, 2010; 1:21pm
URL: http://imagej.273.s1.nabble.com/analyzing-spine-dynamics-in-ImageJ-tp3686565p3686568.html

Hi Reena,

For motilty studies, the Matus group used a routine where they  
subtracted successive time-lapse frames and keep pixel values that  
change  between frames.  You can do this with Stacks-TFunctions-
DeltaFDown plugin from the MBF plugin collection.  We've used a  
variation of this where you project the deltaF stack using Stacks-
Zproject-standard deviation to create a 2D image of motilty.  Before  
doing this be sure the timelapse stack is well aligned  (stacks-
shuffling-align slices).

Another excellent plugin is NeuronJ, which facilitates protrusion  
length measurements.  There a many more clever things people have done  
with ImageJ and spines scattered in the literature.

Michael

On Oct 27, 2010, at 4:26 AM, Reena Prity Murmu wrote:

> Dear Fred,
> The data that I want to analyze are Z-stacks of dendritic segments  
> taken at different time points. Will try what u suggested in ImageJ.  
> Thank u very much for ur suggestion.
>
> Best wishes
> Reena