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README.md

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SciLifeLab Metadata Templates

This repository stores metadata templates in use at SciLifeLab, organized according to data type. In addition to data type specific fields capturing the technical metadata itself, all templates include additional organizational metadata such as

  • SciLifeLab infrastructure platform and unit
  • Unit internal project ID(s)
  • Associated order ID
  • Experimental Sample IDs (as assigned by the unit, 1 exp sample = 1 data file (pair))
  • Associated Sample IDs (as shared by the researcher with the unit)

General Template structure

A template has a title, a description and a semantic version number, as well as well as a list of associated attribute fields. Each attribute field needs to have:

  • title
  • description
  • type
  • list of controlled vocabulary terms if applicable
  • level of requirement/cardinality (mandatory vs optional)
  • end_repository_alias (if applicable; can be multiple if multiple relevant end repositories are considered)
  • reference_ontology (if exists)

A row entry for an individual sample would then be

<data_type_specific_field1> ... <data_type_specific_fieldM> <data_file_name_R1> ... <data_file_name_RP> <orga_meta_field1> ... <orga_meta_fieldN>

Templates are provided as tsv, JSON and xlsx. JSON and xlsx files include controlled vocabulary terms where available.

Specific Templates available

Title Description Link
SciLifeLab Genomics Technical Metadata Template This template aims to capture technical metadata for genomics data produced at the Genomics platform, compatible with submission requirements from ENA and ArrayExpress. genomics/README.md