From 7ce408e6310e10a2feecf7afc1db72a3e42091ca Mon Sep 17 00:00:00 2001 From: Brian Raymor Date: Tue, 5 Nov 2024 10:38:13 -0800 Subject: [PATCH] updated changelog (#1081) --- schema/drafts/5.3.0.md | 29 +++++++++++++++++++++++++++-- 1 file changed, 27 insertions(+), 2 deletions(-) diff --git a/schema/drafts/5.3.0.md b/schema/drafts/5.3.0.md index 35c717c6..43f39edd 100644 --- a/schema/drafts/5.3.0.md +++ b/schema/drafts/5.3.0.md @@ -1881,15 +1881,40 @@ When a dataset is uploaded, CELLxGENE Discover MUST automatically add the `schem --- - ## Appendix A. Changelog ### schema v5.3.0 * General Requirements * Required Ontologies -* uns (Dataset metadata) + +* X (Matrix Layers) + * Updated _Visium Spatial Gene Expression_ table row to _Descendants of Visium Spatial Gene Expression_ + * Added matrix requirements for _Visium CytAssist Spatial Gene Expression, 11mm_. +* obs (Cell metadata) + * Updated the requirements for `array_col`: + * MUST be annotated if the `assay_ontology_term_id` is a descendant of _Visium Spatial Gene Expression_ + * Added ranges for _Visium CytAssist Spatial Gene Expression, 6.5mm_ and _Visium CytAssist Spatial Gene Expression, 11mm_ + * Updated the requirements for `array_row`: + * MUST be annotated if the `assay_ontology_term_id` is a descendant of _Visium Spatial Gene Expression_ + * Added ranges for _Visium CytAssist Spatial Gene Expression, 6.5mm_ and _Visium CytAssist Spatial Gene Expression, 11mm_ + * Updated the requirements for `assay_ontology_term_id` to include descendants of _Visium Spatial Gene Expression_. All observations must contain the same value. Also updated recommended values for assays. + * Updated the requirements for `cell_type_ontology_term_id` to include descendants of _Visium Spatial Gene Expression_. + * Updated the requirements for `in_tissue` to include descendants of _Visium Spatial Gene Expression_. +* obsm (Embeddings) + * Updated the requirements for `spatial` to include descendants of _Visium Spatial Gene Expression_ and to prohibit 'Not a Number' values. + * Updated the requirements for `X_{suffix}` to include descendants of _Visium Spatial Gene Expression_. +* uns (Dataset Metadata) * Updated `schema_reference` to "https://github.com/chanzuckerberg/single-cell-curation/blob/main/schema/5.3.0/schema.md" * Updated `schema_version` to "5.3.0" + * Updated the requirements for `spatial` to include descendants of _Visium Spatial Gene Expression_. + * Updated the requirements for spatial['is_single'] to include descendants of _Visium Spatial Gene Expression_. + * Updated the requirements for spatial[library_id] to include descendants of _Visium Spatial Gene Expression_. + * Updated the requirements for spatial[library_id]['images'] to include descendants of _Visium Spatial Gene Expression_. + * Updated the requirements for spatial[library_id]['images']['fullres'] to include descendants of _Visium Spatial Gene Expression_. + * Updated the requirements for spatial[library_id]['images']['hires'] to include descendants of _Visium Spatial Gene Expression_. Added requirements for Visium CytAssist Spatial Gene Expression, 11mm. + * Updated the requirements for spatial[library_id]['scalefactors'] to include descendants of _Visium Spatial Gene Expression_. + * Updated the requirements for spatial[library_id]['scalefactors']['spot_diameter_fullres'] to include descendants of _Visium Spatial Gene Expression_. + * Updated the requirements for spatial[library_id]['scalefactors']['tissue_hires_scalef'] to include descendants of _Visium Spatial Gene Expression_. ### schema v5.2.0