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@cidgoh

Centre for Infectious Disease and One Health

Hsiao Laboratory at Simon Fraser University

Popular repositories

  1. DataHarmonizer 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 …

    JavaScript 91 25

  2. LexMapr LexMapr Public

    LexMapr: A Lexicon and Rule-Based Tool for Translating Short Biomedical Specimen Descriptions into Semantic Web Ontology Terms

    Python 21 14

  3. GRDI_AMR_One_Health 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 spreadsh…

    7

  4. ontotrek ontotrek Public

    A 3d ontology visualizer focusing on OBOFoundry.org ontologies

    JavaScript 6

  5. VIRUS-MVP 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 …

    Python 6 2

  6. pathogen-genomics-package pathogen-genomics-package Public

    This is the DataHarmonizer spreadsheet web application bundled with pathogen genomics data entry and validation templates

    HTML 6 4

Repositories

Showing 10 of 32 repositories
  • 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
    JavaScript 91 MIT 25 33 4 Updated Aug 26, 2024
  • 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
    0 0 0 0 Updated Aug 22, 2024
  • LexMapr Public

    LexMapr: A Lexicon and Rule-Based Tool for Translating Short Biomedical Specimen Descriptions into Semantic Web Ontology Terms

    cidgoh/LexMapr’s past year of commit activity
    Python 21 GPL-3.0 14 4 1 Updated Aug 20, 2024
  • 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
    7 MIT 0 4 0 Updated Aug 16, 2024
  • nf-ncov-voc Public

    A Nextflow wrapped workflow for generating the mutation profiles of SARS-CoV-2 genomes (Variants of Concern and Variants of Interest). Workflow is developed in collaboration with COVID-MVP (https://github.com/cidgoh/COVID-MVP) which can be used to visualize the mutation profiles and functional annotations.

    cidgoh/nf-ncov-voc’s past year of commit activity
    Python 5 MIT 5 14 (1 issue needs help) 0 Updated Aug 8, 2024
  • 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
    HTML 6 MIT 4 8 1 Updated Jul 31, 2024
  • AMBR_Contextual_data_Specification Public

    A data specification for harmonizing pathogen genomics contextual data as part ofthe AMBR project. 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/AMBR_Contextual_data_Specification’s past year of commit activity
    0 0 0 0 Updated Jul 19, 2024
  • CanCOGeN_Contextual_Data_Specification Public

    A data specification for harmonizing One Health Canadian COVID 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/CanCOGeN_Contextual_Data_Specification’s past year of commit activity
    0 0 0 0 Updated Jul 17, 2024
  • pathogen-mutation-functionalannotation-package Public

    Package for functional annotation of mutations

    cidgoh/pathogen-mutation-functionalannotation-package’s past year of commit activity
    JavaScript 0 MIT 0 0 0 Updated Jul 11, 2024
  • 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
    Python 6 MIT 2 29 (1 issue needs help) 0 Updated Jun 27, 2024
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