HumanCellAtlas / metadata-schema

This repo is for the metadata schemas associated with the HCA

HumanCellAtlas/metadata-schema Issues

Add transplant_organ field in specimen_from_organism
Closed 5 months ago3
Track DUOS project id
Updated 5 months ago
add data access details to project
Closed 5 months ago2
Add gene_annotation_version field to analysis_protocol
Closed 6 months ago
Add alignment_software & alignment_software_version field in analysis_protocol
Closed 9 months ago2
Add transplant field to specimen
Updated a year ago
Add timecourse module to specimen from organism, imaged specimen, organoid biomaterials
Closed a year ago
List and prioritise next schema updates
Updated a year ago1
hca_bionetwork's describedBy pattern is incorrect
Updated a year ago
Update project tab with four metadata entities for grouping Tissue Atlas projects
Closed a year ago1
Add Disease adjacent to specimen form organism
Closed a year ago
Record Genome version used to generate analysis file
Closed 2 years ago1
Add timecourse module to specimen
Updated 2 years ago
Wrong "Apostrophe" used in matrix.json enum values
Closed 2 years ago2
Add illegal characters to schema linter
Updated 2 years ago
Fix schema linter to allow for dependencies keyword
Closed 2 years ago1
Addition of a new protocol schema: treatment_protocol
Closed 2 years ago1
Permeabilisation time and permeabilisation time unit in imaging_preparation_protocol
Closed 2 years ago
Update "links.json" with new protocol type
Closed 2 years ago
Add "HCA Ingest" as a value for "file_core.file_source" field
Closed 2 years ago
Standardise measurement values
Updated 2 years ago
New field: Gender Identity
Updated 2 years ago
Expand disease ontology to include phenotype
Closed 2 years ago
Add "uniqueItems: true" to certain array fields in matrix.json
Updated 2 years ago
Ontologise preservation_storage methods
Updated 2 years ago
Re-assess cell_suspension.estimated_cell_count field name
Updated 2 years ago1
Disallow empty string for file_core.format
Updated 2 years ago
Include 'Information entity' branch as potential ontology terms for file_content_description
Closed 2 years ago
Make Imaging fields non-required: numerical aperture, pixel size and overlapping tiles
Closed 2 years ago
Imaging - Field for tracking permeabilisation time for imaged_specimens
Updated 2 years ago
Update allowed format for barcode length and offset
Updated 3 years ago
Metadata schema update: allow an array of experiment accessions; biosample accessions
Updated 3 years ago
Make imaging_protocol 'channel' and 'probe' optional
Closed 3 years ago1
`ega_accessions` and `dbgap_accessions` patterns are missing anchors
Closed 3 years ago1
Schema update: update library preparation protocol barcode fields
Closed 3 years ago2
Change sequence_file.read_index enum to include Read3/Read4.
Closed 3 years ago3
Add Nuclei Concentration to Library Preparation Schema
Updated 3 years ago
Add Nuclei Purification Method to Library Preparation Schema
Updated 3 years ago
Add Nuclei Resuspension Cycles to Library Preparation Schema
Updated 3 years ago
Add Nuclei Resuspension Reagent to Library Preparation Schema
Updated 3 years ago
Add Lysis Method to Library Preparation Schema
Updated 3 years ago
Move `ncbi_taxon_id` from `biomaterial_core` to `donor_organism`
Updated 3 years ago
New module: accessions.json
Updated 3 years ago
New schema update to specimen_from_organism schema
Updated 3 years ago
Updates to imaging protocol schema
Updated 3 years ago
Ensure correct values are displayed in guidelines for boolean fields
Updated 3 years ago
Disallow unit without value or vice versa for organism age
Updated 3 years ago1
How to cite the metadata-schema discussions?
Closed 3 years ago2
Update specimen_from_organism collection_time pattern regex
Updated 3 years ago
Review Security updates SOP
Updated 3 years ago