Related files:

Excel and TSV templates for this schema will be available when the draft next-generation schema, to be used in all future submissions, is finalized (no later than Sept. 30).

The original publication specification can be found here

Metadata schema

Version 2 (use this one)

We do not expect to receive any new data of this assay type. If you are planning to submit new data of this assay type, reach out to help@hubmapconsortium.org.

Directory schemas

Version 2.2 (use this one)

pattern	required?	description
extras\/.*	✓	Folder for general lab-specific files related to the dataset. [Exists in all assays]
data\/.* (example: data/file1.ext)	✓	Folder for supplementary data files for the publication. All files referenced by the Vitessce visualization configurations in the vignettes must be included in this directory.
vignettes\/.*	✓	Subdirectory containing Vitessce visualization files and a description of those files.
vignettes\/vignette_\d+\/[^\/]+\.json$ (example: vignettes/vignette_01/file1.json)		Vitessce visualization configuration files. One or more visualization configurations can be provided per vignette.
vignettes\/vignette_\d+\/description\.md$ (example: vignettes/vignette_02/description.md)		Description of the vignette and titles for the visualization configuration files.

Version 2.1

pattern	required?	description
extras\/.*	✓	Folder for general lab-specific files related to the dataset. [Exists in all assays]
data\/.+ (example: data/file1.ext)	✓	Supplementary data files for the publication. All files referenced by the Vitessce visualization configurations in the vignettes must be included in this directory.
vignettes\/.*	✓	Subdirectory containing Vitessce visualization files and a description of those files.
vignettes\/vignette_\d+\/[^\/]+\.json$ (example: vignettes/vignette_01/file1.json)		Vitessce visualization configuration files. One or more visualization configurations can be provided per vignette.
vignettes\/vignette_\d+\/description\.md$ (example: vignettes/vignette_02/description.md)		Description of the vignette and titles for the visualization configuration files.

Version 2.0

pattern	required?	description
extras\/.*	✓	Folder for general lab-specific files related to the dataset. [Exists in all assays]
data\/.+ (example: data/file1.ext)	✓	Supplementary data files for the publication. All files referenced by the Vitessce visualization configurations in the vignettes must be included in this directory.
vignettes\/.*	✓	Subdirectory containing Vitessce visualization files and a description of those files.
vignettes\/vignette_\d+\/[^\/]+\.json (example: vignettes/vignette_01/file1.json)		Vitessce visualization configuration files. One or more visualization configurations can be provided per vignette.
vignettes\/vignette_\d+\/description\.md (example: vignettes/vignette_02/description.md)		Description of the vignette and titles for the visualization configuration files.