Repositories list

• ReVSeq-project

  Public
  phylogenetic trees for the 2023/24 season in Switzerland

  00 forks•00 stars•00 issues•00 pull requests•Updated Jul 10, 2025Jul 10, 2025

• marburg-virus

  Public
  Nextstrain build of the Orthomarburgvirus marburgense species taxon

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 14, 2025Jan 14, 2025

• Quantification-of-the-spread-of-a-SARS-CoV-2-variant

  Public
  covid-19

  covid-19

  Python

  •

  GNU General Public License v3.0

  •00 forks•1010 stars•00 issues•00 pull requests•Updated May 28, 2023May 28, 2023

• harvester-database-and-automation

  Public
  The database and automation infrastructure used in the Swiss SARS-CoV-2 Sequencing Consortium (S3C)

  automationresearchgenomics+ 2

  automationresearchgenomicsdata-managementsars-cov-2

  Java

  •

  GNU Lesser General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 16, 2023May 16, 2023

• Grapevine-SARS-CoV-2-Introduction-Analysis

  Public
  Pipeline for estimating putatively independent introductions of SARS-CoV-2 from genome sequences.

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 27, 2022Oct 27, 2022

• POUMM-GWAS

  Public
  Scripts for "A phylogeny-aware GWAS framework to correct for heritable pathogen effects on infectious disease traits".

  TeX

  •11 fork•22 stars•00 issues•00 pull requests•Updated Jul 21, 2022Jul 21, 2022

• 2018-StadlerEtAl-LineageTrees-CodeData

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Jul 14, 2020Jul 14, 2020

• TreePrior-ClockRate

  Public
  Scripts and data for "The impact of the tree prior on estimating clock rates during epidemic outbreaks" (PNAS 2018)

  R

  •33 forks•22 stars•00 issues•00 pull requests•Updated Mar 18, 2018Mar 18, 2018

• 2015-GEMP-Phylodynamics

  Public
  Inferring epidemiological parameters from phylogenies with BEAST2

  11 fork•00 stars•00 issues•00 pull requests•Updated Sep 3, 2015Sep 3, 2015

• Ebola-CurrentsOutbreaks2014

  Public
  Additional files for our paper "Insights into the early epidemic spread of Ebola in Sierra Leone provided by viral sequence data" submitted to PLOS Currents Out…

  R

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 26, 2015Mar 26, 2015

• 2015-CeskyKrumlov-Phylodynamics

  Public
  Český Krumlov 2015 - Phylodynamics

  R

  •22 forks•22 stars•00 issues•00 pull requests•Updated Feb 5, 2015Feb 5, 2015

• TreePar-MatlabPlugin

  Public
  Matlab plugin for TreePar to calculate likelihood for age dependent extinction rates

  M

  •

  GNU General Public License v2.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Nov 9, 2014Nov 9, 2014