ImageJ plugin for object recognition and tracking

[Page Baluch]

Dear List members,
   I am working with a group who would like to track objects through an image stack, create an movie of the traced movement and also generates a text file that will document details of the movement. We have used MTrackJ with some success but were wondering if there was a better program/ImageJ plugin that will also do object recognition so we do not have to manually trace the objects. They have tried metamorph with limited success because some objects will fade in and out of the frame over time.
Thanks for your suggestions.

Page

[mahogny]

Debra Baluch wrote:
> Dear List members,
>    I am working with a group who would like to track objects through an image stack, create an movie of the traced movement and also generates a text file that will document details of the movement. We have used MTrackJ with some success but were wondering if there was a better program/ImageJ plugin that will also do object recognition so we do not have to manually trace the objects. They have tried metamorph with limited success because some objects will fade in and out of the frame over time.
> Thanks for your suggestions.
>
> Page
>  
I don't know a plugin but I should point out that we are nowhere near
the point when an algorithm can identify an arbitrary object. for best
result you need to consider what features the object you have has, if
you need training or if you can hardcode a heuristic. obviously, you
need some programming experience for this, or a student. if you having
fading problems then many naive algorithms will fail. in worst case you
can always annotate it by hand... or run an algorithm and patch the
worst mistakes.

/Johan

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Johan Henriksson
MSc Engineering
PhD student, Karolinska Institutet
http://mahogny.areta.org http://www.endrov.net

[Zoltan]

We use ParticleTracker with success:

 

http://weeman.inf.ethz.ch/particletracker/

 

 

On Thu, Oct 9, 2008 at 6:51 PM, Debra Baluch <[hidden email]> wrote:

Dear List members,
  I am working with a group who would like to track objects through an image stack, create an movie of the traced movement and also generates a text file that will document details of the movement. We have used MTrackJ with some success but were wondering if there was a better program/ImageJ plugin that will also do object recognition so we do not have to manually trace the objects. They have tried metamorph with limited success because some objects will fade in and out of the frame over time.
Thanks for your suggestions.

Page

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Zoltan Cseresnyes
Facility manager, Imaging Suite

[Jason Swedlow]

Hi Page-

The problem you mention-- objects appearing and disappearing over time--  is a common one.  We have had good success with algorithms from the Danuser lab.  See PMID: 18641657 for more info and links for download.

Cheers,

Jason

On Thu, Oct 9, 2008 at 7:29 PM, Zoltan Cseresnyes <[hidden email]> wrote:

We use ParticleTracker with success:

 

http://weeman.inf.ethz.ch/particletracker/

 

 

On Thu, Oct 9, 2008 at 6:51 PM, Debra Baluch <[hidden email]> wrote:

Dear List members,
  I am working with a group who would like to track objects through an image stack, create an movie of the traced movement and also generates a text file that will document details of the movement. We have used MTrackJ with some success but were wondering if there was a better program/ImageJ plugin that will also do object recognition so we do not have to manually trace the objects. They have tried metamorph with limited success because some objects will fade in and out of the frame over time.
Thanks for your suggestions.

Page

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Zoltan Cseresnyes
Facility manager, Imaging Suite