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This is a repository (update site) containing custom plugins and scripts created at the IMCF / Uni Basel, as well as some collected ImageJ plugins we are using that are not (yet) included in Fiji.


To add the repository to your list of FiJi update sites, use this address:

Please see how to follow a 3rd party update site for detailed instructions how to enable an additional update site in your Fiji installation.

PLEASE NOTE: you also need to enable the “IBMP-CNRS” update site that is already configured in Fiji (it’s just not active by default). Otherwise the ActionBars won’t work.


Macros and Plugins in the IMCF repository

Auto Run

Our custom auto run macros.

location: macros/AutoRun/

Action Bars

Our shortcut toolbars, requires the Action Bar plugin.

location: jars/imcf-fiji-toolbars-*.jar

IMCF Tools

Custom macros and scripts for users of our facility.

location: jars/imcf-fiji-scripts-*.jar


“Just another Coloc Plugin”: a compilation of co-localization tools.

location: plugins/jacop_.jar

For more information about the IMCF please have a look at our website:

Imaging Core Facility of the Biozentrum, University of Basel, Switzerland.