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Commit History
17 days ago
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Rename expression categories to Bulk expression and Single-cell expression
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Remove verified synthetic live test geh_live_smoke_20261021_c7a43e
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Add geh_live_smoke_20261021_c7a43e to the catalogue
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Update references for Gene Embedding Hub rename
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Merge Ontologies into Functional and reclassify HPA tissue
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Add informative descriptions for all embeddings
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Add informative descriptions for all embeddings
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Apply final names and labels; remove all unlisted entries
Verified signatureUpdate the Space catalog display names and final taxonomy labels for the 67 authoritative embeddings listed in embedding_modalities_FINAL(1).xlsx, with GO TF-IDF SVD-256 classified as Ontologies. Set category and displayed modality to the final label, mark taxonomy as manual, remove every unlisted catalog entry including community contributions, and add CSS aliases so the final category labels retain the existing palettes.b9ded09 -
Apply final names, labels, and remove unlisted core embeddings
Verified signatureUpdate the Space catalog display names and final taxonomy labels for the embeddings listed in embedding_modalities_FINAL(1).xlsx. Set category and displayed modality to the final label, mark the taxonomy as manual, remove unlisted non-community/core catalog entries, preserve community contributions unchanged, and add CSS aliases so the new category labels retain the existing palettes.b5df75a -
Add HPO Ancestor-Propagated TF-IDF SVD-256 to catalog
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Add GO Biological Process TF-IDF SVD-256 to catalog
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Add DRKG TransE to catalog
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Add STRING WaveGC and STRING GNN to catalog
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Correct embedding modality labels
Verified signatureManually classify all current NEWT embeddings, Gene2Vec variants, and PROBE MUT2VEC as Multimodal; classify PROBE TCGA as Expression. Only category, category_source, and modality fields are changed.ad325fd
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Improve embedding methods, licenses, and descriptions
Verified signatureHide internal QC/source-dataset fields, display linked upstream license/source terms, replace method placeholders from package metadata/READMEs, and remove redundant embedding-name prefixes.856267b -
Improve embedding methods, licenses, and descriptions
Verified signatureHide internal QC/source-dataset fields, display linked upstream license/source terms, replace method placeholders from package metadata/READMEs, and remove redundant embedding-name prefixes.c9daa18
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Correct six modality categories
Verified signatureApply manually reviewed coarse categories: DNABERT2 as DNA; BioBERT, PubMedBERT, and GenePT Model3 GeneProtein as Literature; and PrimeKG/Hetionet non-PPI biomedical context as Knowledge. Only category and category_source change.59e8e9f -
Remove PROBE prefix from display names
Verified signatureRemove the visible probe_ prefix from the names of the 20 PROBE catalog entries. Stable IDs, paths, links, and Dataset content remain unchanged.efbed1b
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Remove version suffixes from embedding display names
Verified signatureRemove v1.1 and v1_1 tokens from the 68 core embedding names shown in the Space. Keep IDs, descriptions, paths, URLs, Dataset content, and all other catalog fields unchanged.b97db46 -
Remove external-reference smoke test from catalog
Verified signatureRemove only external_reference_smoke_20260727_v1 and its generated registry, manifest, catalog, summary, and target-specific path references. Leave the external source Dataset untouched.2aac4e0
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Update catalog for submissions/external_reference_smoke_20260727_v1.yaml
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Clean smoke records and enable dark mode
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Add hf_portal_root_upload_smoke_20260729_1328_v1 from HF PR #8
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Add hf_portal_category_modality_smoke_20260728_v3 from HF PR #6
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Add hf_portal_central_smoke_20260728_v1 from HF PR #3
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Synchronize frozen core embedding catalog
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Update catalog for submissions/external_reference_smoke_20260727_v1.yaml
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Synchronize frozen core embedding catalog
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Reset staging catalog after smoke test
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Update catalog for submissions/smoke_test_embedding.yaml
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Bootstrap automatic contribution interface
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