.zenodo.json

{
  "title": "CyFj11 R package with test suites: FlowJo v11 workspace parser, GatingSet exporter, unit tests, and flowjo_export_tests validation suite",
  "upload_type": "software",
  "description": "This record contains the complete CyFj11 R/Bioconductor package source together with both test suites. CyFj11 parses FlowJo v11 workspace files (.flowjo) and extracts gating hierarchies, populations, transformations, and associated FCS files; it also supports exporting GatingSet objects back to FlowJo v10 XML format. Included are: (1) the full R package source (R/ directory with 17 source files, man/ documentation, vignettes/, inst/); (2) the unit test suite (tests/ directory with testthat tests); and (3) the flowjo_export_tests/ validation suite with 14 test scenarios (tests 01-13: synthetic FCS data and exported FlowJo v10 workspaces; test 14: public FlowSOM example data), generator scripts, and validation reports. This enables reproducible validation of FlowJo v11 / R interoperability and bidirectional workspace conversion.",
  "creators": [
    {
      "name": "Jagla, Bernd",
      "affiliation": "Institut Pasteur",
      "orcid": "0000-0002-7696-0484"
    }
  ],
  "keywords": [
    "flow cytometry",
    "FlowJo",
    "GatingSet",
    "Gating-ML",
    "workspace interoperability",
    "R",
    "Bioconductor",
    "CyFj11",
    "test suite",
    "validation"
  ],
  "license": "MIT",
  "version": "0.99.9",
  "language": "eng",
  "related_identifiers": [
    {
      "relation": "isSupplementTo",
      "identifier": "https://github.com/C3BI-pasteur-fr/CyFj11",
      "resource_type": "software",
      "scheme": "url"
    },
    {
      "relation": "isDerivedFrom",
      "identifier": "https://bioconductor.org/packages/FlowSOM",
      "resource_type": "software",
      "scheme": "url"
    }
  ],
  "notes": "Tests 01-13 use entirely synthetic FCS data generated by flowjo_export_tests/generate_all_tests.R with fixed random seeds. Test 14 uses the public example dataset bundled with the Bioconductor FlowSOM package (68983.fcs and gating.wsp). No human or patient-derived material is included."
}