thednainus

thednainus's Stars

• ebov/space-time

  Analysis of EBOV genome sequence from Guinea, Sierra Leone and Liberia from 2014-2016

  Language:Jupyter Notebook5819

• mrc-ide/scott

  Structured COalescent Transmission Tree simulation

  Language:R3

• mrc-ide/spam.mpxv

  Stochastic pair approximation model for Monkeypox virus

  Language:R8

• EpiModel/EpiModel

  Mathematical Modeling of Infectious Disease Dynamics

  Language:R24959

• sabifo4/mammals_dating

  Methods for the analyses described in Álvarez-Carretero et al. 2022 (https://doi.org/10.1038/s41586-021-04341-1)

  Language:HTML184

• florianhartig/BayesianTools

  General-Purpose MCMC and SMC Samplers and Tools for Bayesian Statistics

  Language:R12029

• xavierdidelot/TransPhylo

  Reconstruction of transmission trees using genomic data

  Language:R6022

• JamesStimson/transcluster

  Infer transmission clusters from SNP and timing data

  Language:R134

• gtonkinhill/fasttranscluster

  Language:Python32

• ablab/spades

  SPAdes Genome Assembler

  Language:C++776139

• rstudio/rstudio

  RStudio is an integrated development environment (IDE) for R

  Language:Java4.7k1.1k

• EpiModel/EpiModelHIV

  Network Models of HIV Transmission Dynamics among MSM and Heterosexuals

  Language:R2512

• potherca-blog/project-stages

  Badges for Project Stages

  Language:CSS31

• PangeaHIV/VirusTreeSimulator

  Simulates virus trees within a given transmission tree

  Language:Java64

• EpiModel/EpiModel-Gallery

  Gallery of Network-Based Epidemic Model Templates for EpiModel

  Language:R5331

• roblanf/sarscov2phylo

  Global phylogenies of SARS-CoV-2 sequences

  Language:Shell8622

• sanger-pathogens/Artemis

  Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

  Language:Java24077

• rega-cev/virulign

  VIRULIGN: fast codon-correct alignment and annotation of viral genomes

  Language:C3112

• BBeamud/PhyloRecomb

  Language:Shell1

• mhahsler/rBLAST

  Interface for the Basic Local Alignment Search Tool (BLAST) - R-Package

  Language:R10522

• hxnx-sam/DiscreteSpatialPhyloSimulator

  Individual based modelling code for structured populations including phylogenetic tree outputs

  Language:Java5

• tidyverse/ggplot2

  An implementation of the Grammar of Graphics in R

  Language:R6.6k2k

• mdkarcher/phylodyn

  Language:R1715

• mrc-ide/skygrowth

  Phylodynamic inference

  Language:R185

• molecular-epidemiology/molepi-tools

  Links to code for inferring who infected whom

  71

• cboettig/nonparametric-bayes

  :notebook: Non-parametric Bayesian Inference for Conservation Decisions

  Language:TeX4412

• thednainus/Bayesian_tutorial

  Tutorial on Bayesian phylogenetic analysis

  Language:R4515