Pinned Repositories
awesome-parasite
A curated list of host-parasite information
container-template
Containerised R workflow template
diagnostic-dashboard
GRITS uses natural language processing to extract disease-related information from text, including disease names, symptoms, dates, locations, case and death counts, and more.
doltr
A client for dolt databases
eidr-connect
EIDR Connect takes the data extracted by GRITS and structures it to reconstruct disease events as they are reported across different documents.
EpiTator
EpiTator annotates epidemiological information in text documents. It is the natural language processing framework that powers GRITS and EIDR Connect.
fasterize
High performance raster conversion for modern spatial data 🚀🌏▦
flirt
FLIRT uses airline flight schedule data to map the commercial flight network. It shows direct flights from a selected location, and can simulate passengers taking multi-leg itineraries.
HP3
Repository for Host-Pathogen Phylogeny Project. Paper DOI: 10.1038/nature22975
lemis
R package providing access to data on wildlife imports into the United States
EcoHealth Alliance's Repositories
ecohealthalliance/fasterize
High performance raster conversion for modern spatial data 🚀🌏▦
ecohealthalliance/awesome-parasite
A curated list of host-parasite information
ecohealthalliance/container-template
Containerised R workflow template
ecohealthalliance/relic
Tools for working with version-controlled data science workflows
ecohealthalliance/pubcrawler
PubCrawler uses the EpiTator framework (known at time of writing as Annie) to resolve toponyms in the PubMed Central Open Access Subset. It was used to create the estimate of reporting bias in the paper "Global hotspots and correlates of emerging zoonotic diseases".
ecohealthalliance/amr-analysis
Global patterns and correlates in the emergence of antimicrobial resistance in humans
ecohealthalliance/eha-ma-handbook
EcoHealth Alliance Modeling & Analytics Handbook
ecohealthalliance/amphibian_trade
Documenting amphibian trade into the United States
ecohealthalliance/containerTemplateUtils
A set of utility functions for working with the container-template-repo template
ecohealthalliance/ecohealthalliance.r-universe.dev
An R-Universe for EcoHealth Alliance Packages
ecohealthalliance/eh-server-workflow-run
Outlines how you can run various analytic workflows on EHA infrastructure
ecohealthalliance/ehaproj-template
ecohealthalliance/eidr
ecohealthalliance/git2r
R bindings to the libgit2 library
ecohealthalliance/targets-mermaid-test
Test for Target Version and Mermaid Rendering Issues
ecohealthalliance/WABNet-spatial
Code used to produce figures in final report for WABNet project
ecohealthalliance/gheri_eucom
Repo for FY'19 GHERI EUCOM project mapping ecological factors that my play a role in EID emergence and spread
ecohealthalliance/bat_viral_detection_reproduction
Investigating reproductive effects on viral detection in bats
ecohealthalliance/building-blocks-of-reproducibility
A series of presentations on creating reproducible workflows
ecohealthalliance/ehallm
What the Package Does (Title Case)
ecohealthalliance/mclustAddonsEHA
A customized fork of mclustAddons
ecohealthalliance/mclustEHA
A Customized Fork of mclust
ecohealthalliance/module-system-llama
Setting access for user to run llama.cpp models for their work as a module system
ecohealthalliance/ohcleandat
One Health Data Cleaning and Quality Checking Package
ecohealthalliance/open-rvfcast
Wellcome Open RVFCast project repository
ecohealthalliance/RPostgres
Temporary fork for testing Dolt/Doltgres compatibility
ecohealthalliance/RVF_SIR_Model
Repository of code to simulate 34-years of RVFV transmission at a single pan in central South Africa.
ecohealthalliance/sabrenetfunctions
Package for some functions for sabrenet data download, cleaning, summarizing, etc used across sabrenet repositories
ecohealthalliance/slurm-containerized-hpc-environment
The goal of this project is to outline the strategies for integrating Simple Linux Utility for Resource Management(SLURM) into our existing High-Performance Computing(HPC) platform.
ecohealthalliance/slurm-eh-server