Laboratory for experimental botany

ImageJ macros

Macros tested in ImageJ version 1.42m, http://rsbweb.nih.gov/ij/

Measurement of integrated fluorescence intensity, nucleus transect area and maximum feret diameter

Input: Z-stacks of fluorescence images in ZVI format

Macro file: fluomeasure.txt

Sample image: Feulgen stained nucleus of melon (Cucumis melo), fluorescence recorded on AxioImager Z1 (Carl Zeiss) with 546 nm excitation.

Measurement of average fluorescence intensity by distance from the center of nucleus

Input: Z-stacks of fluorescence images of nuclei in ZVI format, cropped to edges of nucleus

Macro file: fluomeasure-distance.txt

Sample image: Feulgen stained nucleus of melon (Cucumis melo), fluorescence recorded on AxioImager Z1 (Carl Zeiss) with 546 nm excitation.

Generation of model nuclei showing DNA distribution

Input: profile values in text file, each value in own line, values shoud be in range 0 to 255

Macro file: nucleus-profile.txt



Aleš Kladnik (ales.kladnik{at}bf.uni-lj.si)
University of Ljubljana, Biotechnical Faculty, Department of Biology
Večna pot 111, SI-1000 Ljubljana, Slovenia