{"record_type":"pith_number_record","schema_url":"https://pith.science/schemas/pith-number/v1.json","pith_number":"pith:2025:3J2N5MLIZ26BL6LQOIHGQY72S5","short_pith_number":"pith:3J2N5MLI","schema_version":"1.0","canonical_sha256":"da74deb168cebc15f970720e6863fa97497b36af4dd7a304ca43fe0ba3cb9985","source":{"kind":"arxiv","id":"2511.13611","version":1},"attestation_state":"computed","paper":{"title":"BIOMERO 2.0: end-to-end FAIR infrastructure for bioimaging data import, analysis, and provenance","license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","headline":"","cross_cats":["q-bio.QM"],"primary_cat":"cs.SE","authors_text":"2), (2) The Francis Crick Institute, (3) Independent Researcher, Amsterdam, Belgium ), Brussels, Department of Medical Biology, Eric A.J. Reits (1), Joost de Folter (1, London, Przemek M. Krawczyk (1) ((1) Amsterdam UMC, Rodrigo Rosas-Bertolini (3), Ron A. Hoebe (1), The Netherlands, Torec T. Luik (1), United Kingdom","submitted_at":"2025-11-17T17:17:22Z","abstract_excerpt":"We present BIOMERO 2.0, a major evolution of the BIOMERO framework that transforms OMERO into a FAIR-compliant (findable, accessible, interoperable, and reusable), provenance-aware bioimaging platform. BIOMERO 2.0 integrates data import, preprocessing, analysis, and workflow monitoring through an OMERO.web plugin and containerized components. The importer subsystem facilitates in-place import using containerized preprocessing and metadata enrichment via forms, while the analyzer subsystem coordinates and tracks containerized analyses on high-performance computing systems via the BIOMERO Python"},"verification_status":{"content_addressed":true,"pith_receipt":true,"author_attested":false,"weak_author_claims":0,"strong_author_claims":0,"externally_anchored":false,"storage_verified":false,"citation_signatures":0,"replication_records":0,"graph_snapshot":true,"references_resolved":false,"formal_links_present":false},"canonical_record":{"source":{"id":"2511.13611","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"cs.SE","submitted_at":"2025-11-17T17:17:22Z","cross_cats_sorted":["q-bio.QM"],"title_canon_sha256":"51a72b929855f5b216424a345575bb5d1fd2a1c336806e7bfea5f9806c2a804a","abstract_canon_sha256":"5f627ef9703d62065f5679e3227f4e740dff8252fce8b1319a1dd5bcea3640ad"},"schema_version":"1.0"},"receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-27T01:05:40.015685Z","signature_b64":"X7k/HKJw1rnvCkc4J9pnGXzIiyvAaWJGFkRZKZ4A4R6wI/hCDcBJwzHZdPNq5a2c6YeMq8UI3ObiJsRXIM5ABA==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"da74deb168cebc15f970720e6863fa97497b36af4dd7a304ca43fe0ba3cb9985","last_reissued_at":"2026-05-27T01:05:40.014819Z","signature_status":"signed_v1","first_computed_at":"2026-05-27T01:05:40.014819Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"graph_snapshot":{"paper":{"title":"BIOMERO 2.0: end-to-end FAIR infrastructure for bioimaging data import, analysis, and provenance","license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","headline":"","cross_cats":["q-bio.QM"],"primary_cat":"cs.SE","authors_text":"2), (2) The Francis Crick Institute, (3) Independent Researcher, Amsterdam, Belgium ), Brussels, Department of Medical Biology, Eric A.J. Reits (1), Joost de Folter (1, London, Przemek M. Krawczyk (1) ((1) Amsterdam UMC, Rodrigo Rosas-Bertolini (3), Ron A. Hoebe (1), The Netherlands, Torec T. Luik (1), United Kingdom","submitted_at":"2025-11-17T17:17:22Z","abstract_excerpt":"We present BIOMERO 2.0, a major evolution of the BIOMERO framework that transforms OMERO into a FAIR-compliant (findable, accessible, interoperable, and reusable), provenance-aware bioimaging platform. BIOMERO 2.0 integrates data import, preprocessing, analysis, and workflow monitoring through an OMERO.web plugin and containerized components. The importer subsystem facilitates in-place import using containerized preprocessing and metadata enrichment via forms, while the analyzer subsystem coordinates and tracks containerized analyses on high-performance computing systems via the BIOMERO Python"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2511.13611","kind":"arxiv","version":1},"verdict":{"id":null,"model_set":{},"created_at":null,"strongest_claim":"","one_line_summary":"","pipeline_version":null,"weakest_assumption":"","pith_extraction_headline":""},"integrity":{"clean":true,"summary":{"advisory":0,"critical":0,"by_detector":{},"informational":0},"endpoint":"/pith/2511.13611/integrity.json","findings":[],"available":true,"detectors_run":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938"},"references":{"count":0,"sample":[],"resolved_work":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57","internal_anchors":0},"formal_canon":{"evidence_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"author_claims":{"count":0,"strong_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"builder_version":"pith-number-builder-2026-05-17-v1"},"aliases":[{"alias_kind":"arxiv","alias_value":"2511.13611","created_at":"2026-05-27T01:05:40.014929+00:00"},{"alias_kind":"arxiv_version","alias_value":"2511.13611v1","created_at":"2026-05-27T01:05:40.014929+00:00"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2511.13611","created_at":"2026-05-27T01:05:40.014929+00:00"},{"alias_kind":"pith_short_12","alias_value":"3J2N5MLIZ26B","created_at":"2026-05-27T01:05:40.014929+00:00"},{"alias_kind":"pith_short_16","alias_value":"3J2N5MLIZ26BL6LQ","created_at":"2026-05-27T01:05:40.014929+00:00"},{"alias_kind":"pith_short_8","alias_value":"3J2N5MLI","created_at":"2026-05-27T01:05:40.014929+00:00"}],"events":[],"event_summary":{},"paper_claims":[],"inbound_citations":{"count":0,"internal_anchor_count":0,"sample":[]},"formal_canon":{"evidence_count":0,"sample":[],"anchors":[]},"links":{"html":"https://pith.science/pith/3J2N5MLIZ26BL6LQOIHGQY72S5","json":"https://pith.science/pith/3J2N5MLIZ26BL6LQOIHGQY72S5.json","graph_json":"https://pith.science/api/pith-number/3J2N5MLIZ26BL6LQOIHGQY72S5/graph.json","events_json":"https://pith.science/api/pith-number/3J2N5MLIZ26BL6LQOIHGQY72S5/events.json","paper":"https://pith.science/paper/3J2N5MLI"},"agent_actions":{"view_html":"https://pith.science/pith/3J2N5MLIZ26BL6LQOIHGQY72S5","download_json":"https://pith.science/pith/3J2N5MLIZ26BL6LQOIHGQY72S5.json","view_paper":"https://pith.science/paper/3J2N5MLI","resolve_alias":"https://pith.science/api/pith-number/resolve?arxiv=2511.13611&json=true","fetch_graph":"https://pith.science/api/pith-number/3J2N5MLIZ26BL6LQOIHGQY72S5/graph.json","fetch_events":"https://pith.science/api/pith-number/3J2N5MLIZ26BL6LQOIHGQY72S5/events.json","actions":{"anchor_timestamp":"https://pith.science/pith/3J2N5MLIZ26BL6LQOIHGQY72S5/action/timestamp_anchor","attest_storage":"https://pith.science/pith/3J2N5MLIZ26BL6LQOIHGQY72S5/action/storage_attestation","attest_author":"https://pith.science/pith/3J2N5MLIZ26BL6LQOIHGQY72S5/action/author_attestation","sign_citation":"https://pith.science/pith/3J2N5MLIZ26BL6LQOIHGQY72S5/action/citation_signature","submit_replication":"https://pith.science/pith/3J2N5MLIZ26BL6LQOIHGQY72S5/action/replication_record"}},"created_at":"2026-05-27T01:05:40.014929+00:00","updated_at":"2026-05-27T01:05:40.014929+00:00"}