Disease outbreak reconstruction from epidemiological and genetic data
☆36Apr 20, 2026Updated 3 months ago
Alternatives and similar repositories for outbreaker2
Users that are interested in outbreaker2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Reconstruction of transmission trees using genomic data☆72Jul 14, 2026Updated 2 weeks ago
- Handling, Visualisation and Analysis of Epidemiological Contacts☆18Apr 17, 2025Updated last year
- Small Helpers and Tricks for Epidemics Analysis☆12Sep 20, 2023Updated 2 years ago
- Simulate infectious disease transmission with contact tracing☆18Jun 29, 2026Updated last month
- Optimised estimates of reproduction numbers over time, which extract more information from an incidence curve than many conventional appr…☆23Dec 9, 2023Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Whole genome core alignments from multiple draft genomes☆13Sep 14, 2016Updated 9 years ago
- Convert dates to arbitrary week definitions☆17Oct 6, 2022Updated 3 years ago
- Projections of future incidence☆14Dec 6, 2024Updated last year
- RECON learn: a free, open platform for training material on epidemics analysis☆36Aug 1, 2022Updated 3 years ago
- Flu Scenario Modeling Hub☆12Apr 22, 2025Updated last year
- ECDC in collaboration with Epiconcept developed an R package for monitoring infectious disease surveillance data☆19Jul 24, 2025Updated last year
- Simulating virus evolution and epidemiology☆21Feb 22, 2022Updated 4 years ago
- ☣ Risk assessment of travel-related disease spread☆19Mar 9, 2026Updated 4 months ago
- Basic Tools for the Analysis of Disease Outbreaks☆12Oct 24, 2019Updated 6 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- ☆10Sep 30, 2025Updated 9 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆99Dec 9, 2025Updated 7 months ago
- Simulating Plasmodium Epidemiological and Genetic Data☆12Apr 3, 2023Updated 3 years ago
- Predict MLST directly from uncorrected long reads☆27Oct 31, 2025Updated 8 months ago
- ☆23Jul 5, 2026Updated 3 weeks ago
- [work-in-progress] Curated list of HFOSS (Humanitarian Free and Open Source Software) who are very welcome to external developers contrib…☆14Mar 8, 2026Updated 4 months ago
- Download all EpiCoV sequcnes from GISAID☆32Jun 21, 2022Updated 4 years ago
- Analysis of COVID-19 transmission using cluster size distribution☆11Jun 14, 2022Updated 4 years ago
- ☆21Oct 4, 2023Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- baltic - adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. This fork will no longe…☆12Dec 18, 2019Updated 6 years ago
- R Package of methods and data for spatial epidemiology☆34Feb 22, 2023Updated 3 years ago
- A {crew} launcher plugin for AWS Batch☆20Jan 5, 2026Updated 6 months ago
- Welcome to the StrainHub Repo - Files and Data - StrainHub Online:☆18Jun 26, 2022Updated 4 years ago
- Pipeline to generate NGS reads from a phylogeny☆39Sep 13, 2022Updated 3 years ago
- Bayesian Modelling in Epidemiology Case Line Lists☆14Oct 7, 2025Updated 9 months ago
- US RSV Forecast Hub☆12Jun 5, 2026Updated last month
- Analysis of global migration patterns of seasonal influenza viruses☆22Jul 24, 2019Updated 7 years ago
- ☆44Apr 13, 2026Updated 3 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Monte-Carlo State Space Models☆19Jul 1, 2024Updated 2 years ago
- R package for estimation and monitoring of the effective reproduction number in a pathogen outbreak/epidemic☆12Sep 10, 2024Updated last year
- Humanitarian Exchange Language (HXL standard) in R☆13Apr 20, 2018Updated 8 years ago
- R material for LSHTM's Advanced Statistical Methods in Epidemiology (ASME) practical sessions☆15May 29, 2020Updated 6 years ago
- Wastewater Epidemic Model☆15Jun 12, 2024Updated 2 years ago
- Stochastic epidemiological branching simulation☆11Dec 14, 2020Updated 5 years ago
- GraphSNP: Using graph approach to investigate outbreak cluster and transmission in a web browser☆13Oct 5, 2025Updated 9 months ago