ImageJ: Movie of simultaneous images and plotting

[Rob Lee-2]

Hi.  

I'm using ImageJ to make movies of Ca2+ dynamics in fura-2-loaded cells.  
Basically we're importing the time-lapse images from Perkin Elmer Ultraview
software, making them into stacks and going from there.  What we'd love to do
is to be able to show an movie with the cell/Ca2+ pics and an animation of
simultaneous generation of a plot/graph of the fura2 ratio-derived Ca2+
concentration vs. time.  I've seen this done in several presentations, but am
now sure how people do it.  Can anyone give me any suggestions as to how to
approach this problem?  

One way to do it would be to generate a stack of images of the plot (each one
with an additional time point) and then combine that with the stack of Ca
images and make a movie of the two images together, but generating hundreds of
graph images for each long experimen seems like a daunting amount of work.  
We're doing most of our plotting in Igor Pro, so it may be possible to generate
an Igor macro to produce a graph for each time point which could then be
imported as a stack into ImageJ.  However, I was wondering if anyone had any
better suggestions.  I appreciate any suggestions and I apologize if this
overlaps with previous discussions--I'm new to this list.              

thanks,

rob

   


--
Rob Lee
CAMB Graduate Student
Foskett Lab
Dept of Physiology
Univ. of Penn. School of Medicine
[hidden email]
215-898-0468 (lab)
724-493-7110 (cell)

[Wayne Rasband]

You can do this by using the StackProfilePlot macro at

     http://rsb.info.nih.gov/ij/macros/StackProfilePlot.txt

to generate a stack of profile plots and then using the Stack_Combiner
plugin at

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

to combine the stack of profile plots with the source stack.

-wayne

On Oct 12, 2006, at 11:44 AM, Rob Lee wrote:

> Hi.
>
> I'm using ImageJ to make movies of Ca2+ dynamics in fura-2-loaded
> cells.
> Basically we're importing the time-lapse images from Perkin Elmer
> Ultraview
> software, making them into stacks and going from there.  What we'd
> love to do
> is to be able to show an movie with the cell/Ca2+ pics and an
> animation of
> simultaneous generation of a plot/graph of the fura2 ratio-derived Ca2+
> concentration vs. time.  I've seen this done in several presentations,
> but am
> now sure how people do it.  Can anyone give me any suggestions as to
> how to
> approach this problem?
>
> One way to do it would be to generate a stack of images of the plot
> (each one
> with an additional time point) and then combine that with the stack of
> Ca
> images and make a movie of the two images together, but generating
> hundreds of
> graph images for each long experimen seems like a daunting amount of
> work.
> We're doing most of our plotting in Igor Pro, so it may be possible to
> generate
> an Igor macro to produce a graph for each time point which could then
> be
> imported as a stack into ImageJ.  However, I was wondering if anyone
> had any
> better suggestions.  I appreciate any suggestions and I apologize if
> this
> overlaps with previous discussions--I'm new to this list.
>
> thanks,
>
> rob
>
>
>
>
> --
> Rob Lee
> CAMB Graduate Student
> Foskett Lab
> Dept of Physiology
> Univ. of Penn. School of Medicine
> [hidden email]
> 215-898-0468 (lab)
> 724-493-7110 (cell)
>

[Knecht, David]

I did one sort of like this a while back.  I made a movie of the  
cells in quicktime.  Then I made a graph of the data as a tiff file  
from Prism or Excel.  I brought both into Flash and made a dot that  
followed the path of the tiff graph as a path animation in the same  
timeline as the quicktime movie was playing.  That was then exported  
as a quicktime movie.  Dave

Dr. David Knecht
Department of Molecular and Cell Biology
U-3125
91 N. Eagleville Rd.
University of Connecticut
Storrs, CT 06269
860-486-2200
860-486-4331 (fax)


On Oct 12, 2006, at 1:52 PM, Wayne Rasband wrote:

> You can do this by using the StackProfilePlot macro at
>
>     http://rsb.info.nih.gov/ij/macros/StackProfilePlot.txt
>
> to generate a stack of profile plots and then using the  
> Stack_Combiner plugin at
>
>      http://rsb.info.nih.gov/ij/plugins/combiner.html
>
> to combine the stack of profile plots with the source stack.
>
> -wayne
>
> On Oct 12, 2006, at 11:44 AM, Rob Lee wrote:
>
>> Hi.
>>
>> I'm using ImageJ to make movies of Ca2+ dynamics in fura-2-loaded  
>> cells.
>> Basically we're importing the time-lapse images from Perkin Elmer  
>> Ultraview
>> software, making them into stacks and going from there.  What we'd  
>> love to do
>> is to be able to show an movie with the cell/Ca2+ pics and an  
>> animation of
>> simultaneous generation of a plot/graph of the fura2 ratio-derived  
>> Ca2+
>> concentration vs. time.  I've seen this done in several  
>> presentations, but am
>> now sure how people do it.  Can anyone give me any suggestions as  
>> to how to
>> approach this problem?
>>
>> One way to do it would be to generate a stack of images of the  
>> plot (each one
>> with an additional time point) and then combine that with the  
>> stack of Ca
>> images and make a movie of the two images together, but generating  
>> hundreds of
>> graph images for each long experimen seems like a daunting amount  
>> of work.
>> We're doing most of our plotting in Igor Pro, so it may be  
>> possible to generate
>> an Igor macro to produce a graph for each time point which could  
>> then be
>> imported as a stack into ImageJ.  However, I was wondering if  
>> anyone had any
>> better suggestions.  I appreciate any suggestions and I apologize  
>> if this
>> overlaps with previous discussions--I'm new to this list.
>>
>> thanks,
>>
>> rob
>>
>>
>>
>>
>> --
>> Rob Lee
>> CAMB Graduate Student
>> Foskett Lab
>> Dept of Physiology
>> Univ. of Penn. School of Medicine
>> [hidden email]
>> 215-898-0468 (lab)
>> 724-493-7110 (cell)
>>