OMERO Workshop Resources

Downloads

Fiji/ImageJ https://fiji.sc
OMERO.insight https://www.openmicroscopy.org/omero/downloads/
OMERO Fiji plugin https://www.openmicroscopy.org/omero/downloads/

Fiji scripting

Install OMERO plugin for Fiji/ImageJ https://omero-guides.readthedocs.io/en/latest/fiji/docs/installation.html

A-Fiji-Dataset https://abofi-my.sharepoint.com/:f:/g/personal/junel_solis_abo_fi/EgrfqAMipptAvoYdLEjAsI0BzOjMdrPzY1rWQhVk_F-fAw?e=xWn7SL

Script 1 https://raw.githubusercontent.com/ome/training-scripts/v0.3.0/practical/groovy/open_omero_image_no_download.groovy
Script 2 https://raw.githubusercontent.com/ome/training-scripts/v0.3.0/practical/groovy/analyse_dataset_and_save_rois.groovy
Script 3 https://raw.githubusercontent.com/ome/training-scripts/v0.3.0/practical/groovy/analyse_dataset_save_rois_and_summary_table.groovy

TrackMate

Script https://raw.githubusercontent.com/ome/training-scripts/v0.3.0/practical/jython/tracker.jy