LOCI plugin with ImageJ, Mac OSX 10.6.2 , java 1.6.0_17

LOCI plugin fail to import .lif file with its stable release dated on Dec. 3 2009 (4.1.1), but does successfully with daily build as of Jan. 25th, 2010.

I only found the link below today, and seems that the interface is similar to Labview, and could generate scripts like Cell Profiler.

http://pipeline.loni.ucla.edu/

The LONI Pipeline is a free workflow application primarily aimed at Neuroimaging Researchers. With the LONI Pipeline users can quickly create workflows that take advantage of all the greatest neuroimaging tools available.

Bioclip 2002 "A Day In The Life Of A Social Amoeba"

Bioclip 2002 "A Day In The Life Of A Social Amoeba"
or
Here also


I link the local page above, since there has been several requests these days directly to me probably because the bioclips website is not working well these days and the clip cannot be seen on the web.

www.bioclips.com

By the way, one of the people who wrote to me requesting the flash file, Juan Llopis from Albacete in Spain, told me that there was an article about the clip in Spanish media last year (Nov. 2007). Here is the link:

Cómo acercar la ciencia a la industria
Autor: Luis Ángel Fernández Hermana

... but unfortunately I don't understand Spanish.

One of the article that wrote about the clip immediately after the presentation is here:

Rhythm 'n' biology
- What happens if cell biology and techno music meet? -
Holger Breithaupt
EMBO reports 3, 9, 813–815 (2002)
doi:10.1093/embo-reports/kvf188
Published online: September 2002

There is another bioclip compiled in 2003 with Timo and Jens, about Parasites cell biology but this has not been converted to a flash and never been published on the web. If there are many requests, I will find time to work on it (but wait, at the moment I now don't have flash software...).

Frapcalc: V9c

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Update Note (ver9c)

Mark Kwaaitaal (Max Planck Institute for Plant Breeding Research) wrote me a email pointing out that he could not see drop-down menu in the Fitpanel. I searched for the cause of problem and this defect was due to a change from IgorPro ver5 to ver6. As stated in the notes for the ver6 release

Extended syntax for PopupMenu and ValDisplay value keyword: Previously, using the # prefix meant that the following text needed to be a literal quoted string. Now, the following text can be a string expression that will be evaluated at run time to obtain the actual string expression that needs to be executed each time the popup menu is used. In other words, there is a level of indirection. (link)

and communication in email list (Link), global variable cannot be used for the command popupmenu. Only quoted string or string expression function is allowed. For this reason, following line

PopupMenu popup1,value=# G_MethodList

was replaced to

PopupMenu popup1,value=# "G_MethodList"

Two such lines were replaced.

IJ plugin: 3D rendering

A new 3D rendering ImageJ Plugin
http://www.ini.uzh.ch/~acardona/trakem2.html

TrakEM2

Color coder for time-lapse sequences

Several people asked me tool for such purpose so I wrote a short macro for that. Works in ImageJ, and selection of different color coding is available.

- Sebastian Streichan (Karsenti lab)

Primodium segmentation problem.

- Tiago Ferreira (Mouse Biology Unit)

ImageJ RoiManager macro problem, unstable in java1.4 mac.