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    76 repositories

    • mgsim

      Public
      Spatially explicit process-explicit model of the Mycoplasma epizootic in house finches.
      HTML
      •
      Creative Commons Zero v1.0 Universal
      •0•0•0•0•Updated Mar 12, 2026Mar 12, 2026

    • bathaus

      Public
      how does urban roosting shape viral diversity and zoonotic risk in bats?
      R
      •0•0•0•0•Updated Mar 6, 2026Mar 6, 2026

    • macroecology-coinfection

      Public
      Analysis of coinfection in the PREDICT-2 data
      HTML
      •
      MIT License
      •0•0•0•0•Updated Feb 13, 2026Feb 13, 2026

    • NW-SNV

      Public
      Code for the paper on the First Sin Nombre virus (Orthohantavirus sinnombreense) genome sequences from the Northwestern United States.
      Jupyter Notebook
      •0•0•0•0•Updated Feb 7, 2026Feb 7, 2026

    • synbias

      Public
      A review/simulation study of how synzootic interactions bias estimates of parasite richness.
      Julia
      •0•0•0•0•Updated Feb 6, 2026Feb 6, 2026

    • virion

      Public
      An open database of vertebrate-virus interactions
      virustaxonomydataset
      virustaxonomydatasetecological-networkvertebrate
      R
      •
      GNU Lesser General Public License v3.0
      •9•40•37•1•Updated Dec 16, 2025Dec 16, 2025

    • deposits

      Public
      R Client for access to multiple data repository services
      R
      •
      Other
      •4•0•0•0•Updated Dec 11, 2025Dec 11, 2025

    • wddsWizard

      Public
      An R package for standardizing wildlife disease data
      software
      software
      R
      •
      Other
      •0•0•24•0•Updated Dec 5, 2025Dec 5, 2025

    • wdds

      Public
      Convenient Storage location for Wild Disease Data Standard files
      Creative Commons Zero v1.0 Universal
      •0•1•6•0•Updated Nov 25, 2025Nov 25, 2025

    • viralemergence.github.io

      Public
      Landing page for viral emergence repo.
      MIT License
      •0•0•0•0•Updated Nov 25, 2025Nov 25, 2025

    • epizootic

      Public
      An R package for spatially explicit population models of disease transmission in wildlife
      software
      software
      R
      •
      GNU General Public License v3.0
      •1•4•0•0•Updated Nov 12, 2025Nov 12, 2025

    • pharos-frontend

      Public
      TypeScript
      •
      MIT License
      •0•0•21•0•Updated Nov 6, 2025Nov 6, 2025

    • fingerprint-preprint

      Public
      Code for Gibb et al. (2024)
      R
      •0•0•0•0•Updated Oct 30, 2025Oct 30, 2025

    • pharos-documentation

      Public
      Markdown files for PHAROS website
      0•1•9•0•Updated Oct 24, 2025Oct 24, 2025

    • dangerzone

      Public
      Viral diversity and zoonotic risk in endangered species
      R
      •0•0•1•0•Updated Oct 18, 2025Oct 18, 2025

    • wdds-sortee-workshop

      Public
      Materials for the WDDS sortee workshop
      JavaScript
      •
      MIT License
      •0•0•0•0•Updated Oct 8, 2025Oct 8, 2025

    • phylofatality

      Public
      Phylogenetic factorization of zoonotic reservoirs' viruses' case fatality rate
      R
      •0•1•0•0•Updated Aug 29, 2025Aug 29, 2025

    • mouse_to_pharos

      Public
      convert white footed mouse data to pharos format
      R
      •
      MIT License
      •0•0•5•0•Updated Aug 27, 2025Aug 27, 2025

    • mezap-utils

      Public
      Bioinformatic utilities for the Molecular Ecology of Zoonotic and Animal Pathogens Lab team
      Python
      •0•1•0•0•Updated Aug 22, 2025Aug 22, 2025

    • rna-seq-analysis-utils

      Public
      Python
      •0•1•0•0•Updated Aug 13, 2025Aug 13, 2025

    • SNVler

      Public
      Tools for assembling genomes for Orthohantavirus sinnombreense
      software
      software
      Python
      •0•0•0•0•Updated Aug 4, 2025Aug 4, 2025

    • tatat

      Public
      Transcriptome Assembly, Thinning, and Annotation Tool
      software
      software
      Python
      •
      MIT License
      •0•6•0•0•Updated Jul 8, 2025Jul 8, 2025

    • py-virion-data

      Public
      software
      software
      Python
      •
      MIT License
      •0•1•3•0•Updated Jul 1, 2025Jul 1, 2025

    • viralemergence.r-universe.dev

      Public
      R universe instance for the Verena Institute
      MIT License
      •0•0•0•0•Updated Jun 25, 2025Jun 25, 2025

    • virionData

      Public
      Access Versioned VIRION Data
      software
      software
      R
      •
      GNU General Public License v3.0
      •0•0•4•0•Updated Jun 25, 2025Jun 25, 2025

    • r-reproducible-repo

      Public template
      Template for reproducible R projects.
      R
      •
      MIT License
      •0•0•0•0•Updated Apr 9, 2025Apr 9, 2025

    • .github

      Public
      Github header
      1•0•0•0•Updated Apr 2, 2025Apr 2, 2025

    • vcds

      Public
      A template that meets the minimum data standard for vector competence experiments 🦟✍️🔢
      MIT License
      •0•0•0•0•Updated Apr 2, 2025Apr 2, 2025

    • comet-standard

      Public archive
      What you're looking for is at viralemergence/vcds
      0•0•0•0•Updated Apr 2, 2025Apr 2, 2025

    • zika-rnaseq-analysis

      Public
      Python
      •0•2•0•0•Updated Mar 26, 2025Mar 26, 2025