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@NL-BioImaging

NL-BioImaging AM

NL-BioImaging AM is a distributed research infrastructure aimed at promoting progress in the most cutting edge microscopy technologies and providing open access

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  1. biomero biomero Public

    BIOMERO.analyzer - A python library for easy connecting between OMERO (jobs) and a Slurm cluster

    Python 29 6

  2. OMERO.forms OMERO.forms Public

    Extension to OMERO.web to enhance metadata input and provide provenance

    Python 9 8

  3. NL-BIOMERO NL-BIOMERO Public

    Forked from ome/docker-example-omero-grid

    NL‑BIOMERO delivers a full containerized stack to run OMERO together with the BIOMERO 2.0 framework. It provides Docker/Podman configurations and Compose files to deploy OMERO + BIOMERO subsystems …

    Shell 13 6

  4. omero-deployment-kit omero-deployment-kit Public

    deployment solution for OMERO designed for research institutions that require production-ready OMERO server with minimal hassle

    Jinja 7 1

  5. biomero-workflows biomero-workflows Public

    Gather workflows that can be used in BIOMERO

  6. NL-BioImageAnalysis-course2026 NL-BioImageAnalysis-course2026 Public

    Repository for the NL-BioImageAnalysis-course

    Jupyter Notebook 2

Repositories

Showing 10 of 30 repositories
  • BIOMERO.ZarrViewer Public

    BIOMERO OME-Zarr Viewer Extension

    NL-BioImaging/BIOMERO.ZarrViewer's past year of commit activity
    JavaScript 0 AGPL-3.0 0 1 0 Updated Oct 23, 2026
  • fair-segmentation Public

    FAIR organelle segmentation pipeline

    NL-BioImaging/fair-segmentation's past year of commit activity
    Python 0 BSD-3-Clause 0 0 0 Updated Oct 23, 2026
  • fair-metadata-integration Public
    NL-BioImaging/fair-metadata-integration's past year of commit activity
    Python 0 MIT 0 0 0 Updated Oct 22, 2026
  • vis-workflow Public

    Workflow visualiser

    NL-BioImaging/vis-workflow's past year of commit activity
    Python 0 MIT 0 0 0 Updated Oct 22, 2026
  • biomero-schema Public Forked from BioImageTools/biomero-schema

    A spec for BIOMERO workflows (internal)

    NL-BioImaging/biomero-schema's past year of commit activity
    Python 0 Apache-2.0 1 0 3 Updated Oct 22, 2026
  • OMERO.Analysis Public

    Analyse OMERO data

    NL-BioImaging/OMERO.Analysis's past year of commit activity
    JavaScript 0 0 0 0 Updated Oct 21, 2026
  • omero-web-zarr Public Forked from ome/omero-web-zarr

    Implementation of OME-Zarr API with an omero-web app

    NL-BioImaging/omero-web-zarr's past year of commit activity
    Python 0 AGPL-3.0 7 0 0 Updated Oct 21, 2026
  • biomero-scripts Public

    Scripts for use with BIOMERO

    NL-BioImaging/biomero-scripts's past year of commit activity
    Python 5 GPL-2.0 2 3 4 Updated Oct 20, 2026
  • BIOMERO.shallower Public

    Python library and CPU-only container for shallow OME-Zarr normalization in BIOMERO. Reuses verified canonical pixels while retaining new and changed image and label data, reducing storage and result transfers. Shared by BIOMERO.importer and remote Slurm workflows; no OMERO connection or credentials required.

    NL-BioImaging/BIOMERO.shallower's past year of commit activity
    Python 1 Apache-2.0 0 1 1 Updated Oct 20, 2026
  • OMERO.biomero Public

    Plugin adding monitored, in-place uploads and workflows to OMERO Webclient

    NL-BioImaging/OMERO.biomero's past year of commit activity
    JavaScript 2 AGPL-3.0 1 2 4 Updated Oct 20, 2026
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