Tracking movement along a line

[Pedro J CamelloDr Pedro J Camello]

I´m plannig to record transport of a rounded object along a line between
the images of a stack. I don´t expect to have a clear-cut contrast between
the object and the background. The aim is to get the speed (pixels/time)
of the movement along the line
I´ve thought of a handmade procedure:
1) draw a line
2) get line profile for each slice
3) put all the plot values in excel and calculate speed

However, the number of images is too high to make this by hand. Thus, I
need to automatize 2 and 3

Any help will be wellcome

Pedro


--
Dr Pedro J Camello
Dpt Physiology
Faculty of Veterinary Sciences
University of Extremadura
10071 Caceres
Spain
Ph: 927257100 Extension 1321
Fax:[phone]

[Doug S-3]

Pedro,
    just an idea . . . I haven't used this package yet but
Sun's java IDE NetBeans has recently added integration with an open
source package called OpenOffice
OpenOffice is essentially a JAVA version of MicroSoft's Office, but its
free and open source 8-)
It can right EXCEL files as well as its own format:
http://www.openoffice.org/
SUN has supported it as an open source package that helps JAVA itself
become more powerful
Their NetBeans JAVA IDE has a plugin or addon that makes working with
OpenOffice easier
http://www.netbeans.org/community/magazine/html/03/openoffice/
http://wiki.services.openoffice.org/wiki/OpenOffice_NetBeans_Integration
I think its well documented
You can do it with other IDEs I'm sure but it may require a little more
experience with JAVA packages
so it depends on your experience level and how attached you are to a
non-NetBeans IDE
Good Luck with it . . .
I'd like to say I could help more but probably won't be using OPenOffice
for a number of months now
Best
Doug

Pedro J Camello wrote:

> I´m plannig to record transport of a rounded object along a line between
> the images of a stack. I don´t expect to have a clear-cut contrast between
> the object and the background. The aim is to get the speed (pixels/time)
> of the movement along the line
> I´ve thought of a handmade procedure:
> 1) draw a line
> 2) get line profile for each slice
> 3) put all the plot values in excel and calculate speed
>
> However, the number of images is too high to make this by hand. Thus, I
> need to automatize 2 and 3
>
> Any help will be wellcome
>
> Pedro
>
>
>  

[Herbert M. Geller]

Why not make a kymograph?   This allows you to draw a line on the
kymograph by hand and then the slope of the line equals the velocity of
the movement.

The plug-in is here:
http://www.embl-heidelberg.de/eamnet/html/body_kymograph.html


Pedro J Camello wrote:

> I´m plannig to record transport of a rounded object along a line between
> the images of a stack. I don´t expect to have a clear-cut contrast between
> the object and the background. The aim is to get the speed (pixels/time)
> of the movement along the line
> I´ve thought of a handmade procedure:
> 1) draw a line
> 2) get line profile for each slice
> 3) put all the plot values in excel and calculate speed
>
> However, the number of images is too high to make this by hand. Thus, I
> need to automatize 2 and 3
>
> Any help will be wellcome
>
> Pedro
>
>
>  

--
--------------------------------------
Herbert M. Geller, Ph.D.
Developmental Neurobiology Section
National Heart Lung and Blood Institute, NIH
10 Center Drive MSC 1754
Bldg 10, Room 6D18
Bethesda, MD  20892-1754
Tel: [phone]; Fax: [phone]
e-mail: [hidden email]
Web: http://dir.nhlbi.nih.gov/labs/ldn/index.asp
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