Wednesday, March 28, 2007

FRAP analysis macro updates

Curve fitting macro for FRAP analysis is now updated to ver9, and documentation is now updated as well. see

- more importing formats for Leica data
- compatible with IgorPro ver6

- corrected some formula and parameter descriptions in the document


Monday, March 26, 2007

Raju @ DB

Raju wants to study colocalization of signals from two different embryos with similar shape. For this there seems to be publicly available Amira library and Raju will try modifying and implementing it in ImageJ plugin.


Site moved

CMCI web site moved out from my personal web space to the official web space.
Homepage address is now



Tuesday, March 20, 2007

Iva @ Karsenti

Iva wanted to use profile analyzer I made for Marianne. Macro did not work since her ImageJ was an old version.

Though the macro now works fine, the purpose of her experiment seems to be a bit different since she wants to measure the turnover rate of proteins. So I suggested her to use Time series analyzer plugin and also to read a manual I wrote for the FRAP analysis.


Wednesday, March 14, 2007

Katherine DB

fixed setting for the LOCI plugin
problem was multiple "bio-formats.jar" installed in several different places.
Removing these files recovered proper behavior.


Thursday, March 01, 2007

redoing old macro

went back to preprocessing macro for tracking:

// K_SpaceEqualizer2.ijm
// attenuate the edynamic range of the image for contrast enhancing.
// started for enhancing virus+microtubule sequences.
//Kota Miura (
//070301 modified and resavved as v2
// use algorithm2. ititially, background ROI must be defined.


IJ plugin course 2 by Cihan Cetin

a lot of practicals today:

- installing Eclipse
- making first program
- instance variables
- class variables