Centre for Infectious Disease and One Health
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DataHarmonizer
DataHarmonizer PublicA standardized browser-based spreadsheet editor and validator that can be run offline and locally, and which includes templates for SARS-CoV-2 and Monkeypox sampling data. This project, created by …
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pathogen-genomics-package
pathogen-genomics-package PublicThis is the DataHarmonizer spreadsheet web application bundled with pathogen genomics data entry and validation templates
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GRDI_AMR_One_Health
GRDI_AMR_One_Health PublicA data specification for harmonizing One Health AMR pathogen genomics contextual data. The specification provides standardized (ontology-based) fields and terms which are implemented via a spreadsh…
Repositories
- specification-development-training Public
A repository for sharing guidance and training around developing a contextual data specification for pathogen surveillance
cidgoh/specification-development-training’s past year of commit activity - pathogen-genomics-package Public
This is the DataHarmonizer spreadsheet web application bundled with pathogen genomics data entry and validation templates
cidgoh/pathogen-genomics-package’s past year of commit activity - DataHarmonizer Public
A standardized browser-based spreadsheet editor and validator that can be run offline and locally, and which includes templates for SARS-CoV-2 and Monkeypox sampling data. This project, created by the Centre for Infectious Disease Genomics and One Health (CIDGOH), at Simon Fraser University, is now an open-source collaboration with contributions…
cidgoh/DataHarmonizer’s past year of commit activity - PHA4GE_genotyping_specification Public
A data specification for harmonizing microbial typing contextual data. The specification provides standardized (ontology-based) fields and terms which can be implemented in tooling, with supporting guidance.
cidgoh/PHA4GE_genotyping_specification’s past year of commit activity - MPox_Contextual_Data_Specification Public
A data specification for harmonizing MPox pathogen genomics contextual data. The specification provides standardized (ontology-based) fields and terms which are implemented via a the DataHarmonizer, supported by field and reference guides as well as different curation and new term request SOPs.
cidgoh/MPox_Contextual_Data_Specification’s past year of commit activity - B2B2B2_Contextual_Data_Specification Public
A One Health data specification harmonizing gold-standard microbial AMR datasets, developed under JPIAMR’s B2B2B AMRDx project. The specification provides standardized ontology-based fields and terms, implemented via the DataHarmonizer tool and supported by detailed reference guides and a new term request SOP.
cidgoh/B2B2B2_Contextual_Data_Specification’s past year of commit activity - AMR-TV Public
cidgoh/AMR-TV’s past year of commit activity - GRDI_AMR_One_Health Public
A data specification for harmonizing One Health AMR pathogen genomics contextual data. The specification provides standardized (ontology-based) fields and terms which are implemented via a spreadsheet collection template, supported by field and reference guides as well as different curation and new term request SOPs.
cidgoh/GRDI_AMR_One_Health’s past year of commit activity - nf-ncov-voc Public
A Nextflow wrapped workflow for generating the mutation profiles of SARS-CoV-2 or Mpox genomes. Workflow is developed in collaboration with VIRUS-MVP (https://github.com/cidgoh/VIRUS-MVP) which can be used to visualize the mutation profiles and functional annotations.
cidgoh/nf-ncov-voc’s past year of commit activity - VIRUS-MVP Public
VirusMVP is an interactive heatmap-centric app that integrates viral genomic mutations, lineage information and curated functional impact to study the spread and evolution of viruses in Canada and globally.
cidgoh/VIRUS-MVP’s past year of commit activity
