Alternatives and similar repositories for ncov-phylodynamics

Users that are interested in ncov-phylodynamics are comparing it to the libraries listed below

• xavierdidelot / TransPhylo
  Reconstruction of transmission trees using genomic data
  ☆70Updated 2 years ago
• artic-network / civet
  Cluster Investigation & Virus Epidemiology Tool
  ☆50Updated 6 months ago
• roblanf / sarscov2phylo
  Global phylogenies of SARS-CoV-2 sequences
  ☆85Updated 2 years ago
• tgvaughan / MASTER
  A versatile simulation engine for stochastic population dynamics models.
  ☆23Updated 3 years ago
• serratus-bio / tantalus
  R Data Exploration for Serratus
  ☆15Updated 2 years ago
• ukhsa-collaboration / variant_definitions
  ☆74Updated last year
• rambaut / figtree.js
  Phylogenetic tree library for JavaScript/Node.js
  ☆36Updated 3 years ago
• cov-lineages / pangolin-data
  Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments
  ☆32Updated last month
• lonelyjoeparker / befi-bats-gui
  Java software to analyse phylogeny-trait correlations in discrete traits, accounting for phylogenetic uncertainty via posterior sampling.
  ☆12Updated 8 years ago
• santa-dev / santa-sim
  A forward-time simulator for gene sequences modeling a variety of mutation and selection processes.
  ☆20Updated 2 years ago
• cov-lineages / scorpio
  serious constellations of reoccurring phylogenetically-independent origin
  ☆39Updated 2 years ago
• theosanderson / chronumental
  Estimating time trees from very large phylogenies
  ☆28Updated last year
• trvrb / dynamics-practical
  Inferring spatiotemporal dynamics of the H1N1 influenza pandemic from sequence data
  ☆33Updated 12 years ago
• evogytis / baltic
  baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development…
  ☆114Updated 2 weeks ago
• PoonLab / covizu
  Rapid analysis and visualization of coronavirus genome variation
  ☆48Updated 3 weeks ago
• emvolz / treedater
  Scalable relaxed clock phylogenetic dating
  ☆27Updated 4 months ago
• andersen-lab / avian-influenza
  Consensus sequences for U.S. H5N1 clade 2.3.4.4b
  ☆36Updated last week
• cov-lineages / lineages
  Resources for calling and describing the circulating lineages of SARS-CoV-2
  ☆38Updated 4 years ago
• thednainus / Bayesian_tutorial
  Tutorial on Bayesian phylogenetic analysis
  ☆51Updated 8 years ago
• sdellicour / seraphim
  R package for studying phylogenetically-informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al., submitted)
  ☆37Updated this week
• dib-lab / genome-grist
  map Illumina metagenomes to genomes!
  ☆38Updated 3 weeks ago
• BDI-pathogens / phyloscanner
  Phylogenetics between and within hosts at once, all along the genome.
  ☆50Updated last year
• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆58Updated 4 years ago
• ncbi / rapt
  This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.
  ☆58Updated 9 months ago
• dcdanko / MD2
  MicrobeDirectory 2.0
  ☆22Updated 5 years ago
• yatisht / usher
  Ultrafast Sample Placement on Existing Trees
  ☆138Updated 2 weeks ago
• katholt / plotTree
  ☆67Updated 9 years ago
• Wytamma / beastiary
  Real time and remote MCMC trace monitoring with BEASTIARY.
  ☆21Updated 7 months ago
• niemasd / TreeCluster
  Efficient phylogenetic clustering of viral sequences
  ☆90Updated last month
• tothuhien / lsd-0.3beta
  ☆12Updated 6 years ago