ImageJ plugin for annotating multi-spectral 2D images.
The Annotater was designed to efficiently manually annotate or correct 2D image segmentations (objects and/or areas) and to identify markers associated with objects, either by manually annotating them, by using a thresholding tool or by using a logistic regression.
Video tutorials with confocal images of mouse intestinal epithelium are available at:
Download Fiji/ImageJ and install Annotater
Visualization tools
Object annotation
Region annotation
Associate markers with nuclei
Batch processing (marker identification and feature extraction)
The images used in these video tutorials are available in the folder data.
The tutorial given at I2K 2020 with 2D multiplexed immunofluorescence images of human precancerous polyps is available at:
Tutorial@I2K
Please cite our paper if you use this plugin:
Thierry Pécot, Maria C. Cuitiño, Roger H. Johnson, Cynthia Timmers, Gustavo Leone (2022): Deep learning tools and modeling to estimate the temporal expression of cell cycle proteins from 2D still images