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Big-Life-Lab / PHES-ODM

The Public Health Environmental Surveillance Open Data Model (PHES-ODM, or ODM). A data model, dictionary and support tools for environmental surveillance.
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Building out sequencing metadata #225

Closed mathew-thomson closed 1 year ago

mathew-thomson commented 2 years ago

(related to issue #172 ) We are working to allow for the inclusion of sequencing data and metadata in the ODM version 2. We have been chatting with members of CoVaRR Net's sequencing and bioinformatics pillar, as well as sequencers in Ontario's WSI program to make sure we are capturing all fields adequately. We are also looking at the work done by PHA4GE to see if we can integrate that work as well. Further comments or questions on sequencing can be documented in this thread.

DougManuel commented 1 year ago

Version 2 will include metadata for sequencing, mutations, allelles and gene regions. Measures are grouped into classes.

partID partLabel
allele Alleles class
disease Disease (human)
flowClass Flow class
sequence Genetic sequencing class
humClass Humidity class
mutation Mutations class
physical Physical class
population Population class
precipClass Precipitation class
protein Protein class
variant Variants class