Group: EPFL BIOP

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Repo containing extra settings that can be stored in spimdata file format
Last Release on Sep 1, 2022
Commands and function for opening, conversion and easy use of bioformats format into BigDataViewer
Last Release on Aug 28, 2022
Various image loaders for bigdataviewer (Bio-Formats, Omero, QuPath)
Last Release on Oct 20, 2022
Selector Behaviours for BigDataViewer
Last Release on Sep 3, 2022
Wrappers for ImageJ: Elastix, Transformix, Ilastik (add next here).
Last Release on Oct 14, 2022
Server to launch elastix and transformix tasks
Last Release on Jun 23, 2021
QuPath Extension Warpy
Last Release on Dec 22, 2021
IJ2 commands that use bio-formats to create pyramidal ome.tiff
Last Release on Sep 29, 2022
Hold your horses
Last Release on Nov 11, 2022
A repo that helps the declaration of Scijava Commands from Python
Last Release on Oct 17, 2022
Big data viewer tools BIOP - EPFL
Last Release on Nov 22, 2022

12. Atlases1 usages

ch.epfl.biop » atlasBSD

Repo containing a standard API for Atlases and some example ones
Last Release on Dec 30, 2021
Group EPFL BIOP Montage

14. Fourier Ring Correlation Plugin

ch.epfl.biop » FRC_GPL

Making use of the Fourier Ring Correlation Implementation by Alex Herbert which is itself 'adapted from the FIRE (Fourier Image REsolution) plugin produced as part of the paper Niewenhuizen, et al (2013). Measuring image resolution in optical nanoscopy. Nature Methods, 10, 557 http://www.nature.com/nmeth/journal/v10/n6/full/nmeth.2448.html
Last Release on Feb 25, 2022
QuPath Extension ABBA
Last Release on Nov 17, 2022

16. LaRoMe

ch.epfl.biop » LaRoMeGPL

LaRoMe - BIOP - EPFL
Last Release on Nov 23, 2022
Collection of tools to register images to atlases in FIJI.
Last Release on Oct 19, 2022
A nice project implementing an OMERO connection with ImageJ
Last Release on Dec 16, 2021
Mavenized Improved fit largest circle plugin
Last Release on Aug 15, 2022
Group EPFL BIOP Coloc