{
  "abstract": "Existing workflows for extracting morphological features from network-like biomedical structures often require several heterogeneous tools, which can limit integration and reproducibility. We present MaSkel and napari-MaSkel, open-source Python tools that provide GUI- and CLI-based workflows for 2D and 3D skeletonization and graph-based feature extraction, using a substantially accelerated implementation of the widely used Lee94 thinning algorithm. Availability and Implementation: MaSkel and napari-MaSkel are open-source Python packages available under the MIT license on PyPI and GitHub: https://github.com/bionetslab/maskel/, https://github.com/bionetslab/napari-maskel/. Documentation: https://bionetslab.github.io/maskel/, https://bionetslab.github.io/napari-maskel/. Benchmarking and validation: https://github.com/bionetslab/maskel-evaluations.",
  "abstract_shown": true,
  "affiliations": [
    "Biomedical Network Science Lab, Department Artificial Intelligence in Biomedical Engineering, Friedrich-Alexander-Universitaet Erlangen-Nuernberg, 91052 Erlange"
  ],
  "article_type": "New results",
  "arxiv": null,
  "author_total": 5,
  "authors": [
    {
      "name": "S. Wittmann"
    },
    {
      "name": "D. Pysch"
    },
    {
      "name": "S. Uderhardt"
    },
    {
      "name": "D. B. Blumenthal"
    },
    {
      "affs": [
        0
      ],
      "name": "A. Moeller"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/4qf7j41j057aw.bib",
  "cited_by": 0,
  "doi": "10.64898/2026.09.15.751651",
  "fulltext_url": "https://www.biorxiv.org/content/10.64898/2026.09.15.751651v1.full",
  "id": "4qf7j41j057aw",
  "issns": [],
  "landing_url": "https://www.biorxiv.org/content/10.64898/2026.09.15.751651v1",
  "language": null,
  "licence": "CC-BY-NC-ND",
  "licence_label": "CC BY-NC-ND",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by-nc-nd/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "biorxiv",
      "bioinformatics"
    ],
    [
      "openalex",
      "1304|Cell Image Analysis Techniques"
    ]
  ],
  "openalex": "W7213923374",
  "pdf_url": "https://www.biorxiv.org/content/10.64898/2026.09.15.751651v1.full.pdf",
  "pmcid": null,
  "pmid": null,
  "published": "2026-09-15",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/4qf7j41j057aw.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:23:33Z",
      "native_id": "10.64898/2026.09.15.751651",
      "source": "biorxiv",
      "url": "https://www.biorxiv.org/content/10.64898/2026.09.15.751651v1"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "biorxiv:bioinformatics",
      "subfield": "bioinformatics"
    }
  ],
  "title": "MaSkel and napari-MaSkel: fast morphological skeleton feature extraction from segmentation masks",
  "title_text": "MaSkel and napari-MaSkel: fast morphological skeleton feature extraction from segmentation masks",
  "type": "preprint",
  "updated_at": "2026-10-30T12:23:33Z",
  "url": "https://research.draconitic.com/paper/4qf7j41j057aw",
  "venue": "bioRxiv",
  "versions": []
}