PHA4GE-Wastewater specification package 1.0.0

Release v1.0 - Contextual Data Specification for Wastewater Pathogen Genomics

Initial release of the Wastewater Contextual Data Specification, developed as part of the Public Health Alliance for Genomic Epidemiology (PHA4GE), in collaboration with the CIDGOH and supported by the Gates Foundation. This specification aims to harmonize wastewater pathogen genomics contextual data across a variety of use cases, ensuring consistency and interoperability of data.

Key features

• Standardized fields - ontology based fields, which have been grouped into concise modules aid interoperability.
• Defined picklist terms - ontology based terms make up the picklists for a number of terms, to facilitate consistency in data.
• Comprehensive reference guides - detailed field and reference guides to assist users in accurately classifying and entering data.
• SOPs - standard operating procedures for curation and requests for new terms, ensuring the specification remains up-to-date and inclusive.

Contents

• Wastewater_Master-Reference-Guide-Fields_v1-0-0.pdf
• Wastewater_Master-Reference-Guide-Terms_v1-0-0.pdf
• Wastewater_Master-Reference-Guide_v1-0-0.xlsx
• Wastewater_Contextual-Data-Curation-SOP_1.0.pdf
• Wastewater_Data-Specification-Metadata-NTR-SOP_1.0.pdf
• Wastewater_DataHarmonizer-Curation-SOP_1-0.pdf
• DataHarmonizer Templates - WWAMR-enums.tsv
• DataHarmonizer Templates - WWAMR-slots.tsv
• DataHarmonizer Templates - WWSC2-enums.tsv
• DataHarmonizer Templates - WWSC2-slots.tsv
• DataHarmonizer Templates - WWSinglePathogen-enums.tsv
• DataHarmonizer Templates - WWSinglePathogen-slots.tsv