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    19 repositories

    • biom3d-mouse-embryo-training

      Public
      Scripts and macros used to train a Biom3D model for mouse embryos.
      ImageJ Macro
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 1, 2025Aug 1, 2025

    • NucleusJ

      Public
      Java
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Aug 1, 2025Aug 1, 2025

    • biom3d

      Public
      Easy Volumetric Segmentation with Deep Learning
      Python
      •
      GNU General Public License v3.0
      •7•1•0•0•Updated Jul 30, 2025Jul 30, 2025

    • omero_batch-plugin

      Public
      imagejomeroimagej-macrosimagej-plugin
      Java
      •
      GNU General Public License v2.0
      •4•4•8•0•Updated Jun 27, 2025Jun 27, 2025

    • simple-omero-client

      Public
      Maven project to easily connect to OMERO.
      mavenomerojava
      Java
      •
      GNU General Public License v2.0
      •7•10•5•1•Updated Dec 2, 2024Dec 2, 2024

    • omero_macro-extensions

      Public
      imagejomeroimagej-macro
      Java
      •
      GNU General Public License v2.0
      •5•6•1•0•Updated Nov 19, 2024Nov 19, 2024

    • sRNAPipe-cli

      Public
      CLI tool for bioinformatic in-depth exploration of small RNA-seq data
      rna-seqperltransposable-elements
      Perl
      •
      Academic Free License v3.0
      •0•0•1•0•Updated Apr 11, 2024Apr 11, 2024

    • bioconda-recipes

      Public
      Conda recipes for the bioconda channel.
      Shell
      •
      MIT License
      •3.6k•0•0•0•Updated Apr 11, 2024Apr 11, 2024

    • CLIFinder

      Public
      Perl
      •
      GNU General Public License v3.0
      •0•3•2•0•Updated Apr 10, 2024Apr 10, 2024

    • sRNAPipe

      Public
      a GALAXY-based pipeline for bioinformatic in-depth exploration of small RNA-seq data
      rna-seqgalaxytransposable-elements
      HTML
      •
      Academic Free License v3.0
      •3•2•1•0•Updated Apr 9, 2024Apr 9, 2024

    • biosphere-biom3d

      Public
      Appliance Biosphere for biom3d
      Shell
      •
      GNU General Public License v2.0
      •1•0•0•0•Updated Mar 27, 2024Mar 27, 2024

    • biosphere-omero-server

      Public
      Biosphere appliance for OMERO server.
      Shell
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 22, 2023Nov 22, 2023

    • nj2_python

      Public
      NucleusJ 2.0 in Python
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 31, 2023Oct 31, 2023

    • NucleusJ-tests-images

      Public
      Images for NucleusJ2 CI/CD tests
      1•0•0•0•Updated Aug 3, 2023Aug 3, 2023

    • omero-plugins-workshop

      Public
      ImageJ Macro
      •
      BSD 2-Clause "Simplified" License
      •1•0•0•0•Updated Mar 7, 2023Mar 7, 2023

    • update-site-activator

      Public
      Java
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•0•Updated Jan 25, 2023Jan 25, 2023

    • omero-toolbox-examples

      Public
      ImageJ Macro
      •
      MIT License
      •1•1•0•0•Updated Sep 5, 2022Sep 5, 2022

    • notebooks-team-probst-tatout

      Public
      0•0•0•0•Updated Feb 28, 2022Feb 28, 2022

    • NucBase

      Public
      Small RNA aligner with graphical interface.
      C++
      •
      GNU Lesser General Public License v3.0
      •0•0•0•0•Updated Nov 12, 2014Nov 12, 2014