ngff-spec/myst.yml at main · ome/ngff-spec · GitHub

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version: 1
project:
  title: Next-generation file format specification
  authors:
    - name: NGFF-community
  github: ome/ngff-spec
  bibliography:
    - references.bib
  exports:
    - format: pdf
      template: plain_latex_book
      output: exports/book.pdf
    - format: cff
      type: software
      identifiers:
        - type: doi
          value: 10.1038/s41592-021-01326-w
          description: Original Nature Methods article (2021)
        - type: doi
          value: 10.1101/2023.02.17.528834v2
          description: OME-Zarr preprint (2023)
      repository-code: 'https://github.com/ome/ngff'
      url: 'https://ngff.openmicroscopy.org'
      abstract: >-
        A growing community is constructing a next-generation file
        format (NGFF) for bioimaging to overcome problems of
        scalability and heterogeneity. Organized by the Open
        Microscopy Environment (OME), individuals and institutes
        across diverse modalities facing these problems have
        designed a format specification process (OME-NGFF) to
        address these needs. Those community members have built
        the format itself – OME-Zarr – along with tools and data
        resources available today to increase FAIR access and
        remove barriers in the scientific process. The current
        momentum offers an opportunity to unify a key component of
        the bioimaging domain — the file format that underlies so
        many personal, institutional, and global data management
        and analysis tasks.
      keywords:
        - FAIR
        - community
        - bioimaging
        - data
        - cloud
        - format
      license: CC-BY-4.0
      preferred-citation:
        type: article
        doi: "10.1038/s41592-021-01326-w"
        journal: "Nature Methods"
        month: 11
        start: 1496
        end: 1498
        title: "OME-NGFF: a next-generation file format for expanding bioimaging data-access strategies"
        issue: 12
        volume: 18
        year: 2021
        authors:
        - given-names: "Josh"
          family-names: "Moore"
          orcid: "https://orcid.org/0000-0003-4028-811X"
        - given-names: "Chris"
          family-names: "Allan"
        - given-names: "Sébastien"
          family-names: "Besson"
          orcid: "https://orcid.org/0000-0001-8783-1429"
        - given-names: "Jean-Marie"
          family-names: "Burel"
          orcid: "https://orcid.org/0000-0002-1789-1861"
        - given-names: "Erin"
          family-names: "Diel"
          orcid: "https://orcid.org/0000-0003-2526-3512"
        - given-names: "David"
          family-names: "Gault"
        - given-names: "Kevin"
          family-names: "Kozlowski"
        - given-names: "Dominik"
          family-names: "Lindner"
          orcid: "https://orcid.org/0000-0001-8038-1250"
        - given-names: "Melissa"
          family-names: "Linkert"
        - given-names: "Trevor"
          family-names: "Manz"
          orcid: "https://orcid.org/0000-0001-7694-5164"
        - given-names: "Will"
          family-names: "Moore"
          orcid: "https://orcid.org/0000-0002-7264-8338"
        - given-names: "Constantin"
          family-names: "Pape"
          orcid: "https://orcid.org/0000-0001-6562-7187"
        - given-names: "Christian"
          family-names: "Tischer"
          orcid: "https://orcid.org/0000-0003-4105-1990"
        - given-names: "Jason R."
          family-names: "Swedlow"
          orcid: "https://orcid.org/0000-0002-2198-1958"
  toc:
    - file: index.md
    - file: examples/index.md
      children:
        - pattern: examples/**/*.md
    - file: schemas/index.md
      children:
        - pattern: schemas/*.md
    - file: contribute.md
    - file: citing.md
    - file: version_history.md
site:
  options:
    logo: https://www.openmicroscopy.org/img/logos/ome-logomark.svg
    folders: true
    hide_myst_branding: true
  parts:
    footer: footer.md

  # Temporarily hash-pin the theme.
  # See: https://github.com/jupytercon/jupytercon2025-developingextensions/issues/6
  template: "https://github.com/myst-templates/book-theme/archive/de4c1e9c09c6cd12fc529c1f22e8abf8e7f35381.zip"