Alternatives and similar repositories for SPREADv1:

Users that are interested in SPREADv1 are comparing it to the libraries listed below

• emvolz / treedater
  Scalable relaxed clock phylogenetic dating
  ☆24Updated 11 months ago
• danlwarren / RWTY
  R We There Yet?
  ☆30Updated 2 years ago
• emvolz-phylodynamics / treestructure
  ☆17Updated 3 weeks ago
• duchene / phylomad
  ☆19Updated 9 months ago
• phylogeography / SpreaD3
  Spatial Phylogenetic Reconstruction of Evolutionary Dynamics 3
  ☆15Updated last year
• xavierdidelot / TransPhylo
  Reconstruction of transmission trees using genomic data
  ☆61Updated last year
• tothuhien / lsd-0.3beta
  ☆12Updated 5 years ago
• YuLab-SMU / seqcombo
  Visualization tool for genetic reassortment
  ☆21Updated 4 months ago
• jessiewu / bacterialGWAS
  A pipeline for performing genome-wide association tests for bacterial genomes.
  ☆27Updated 6 years ago
• trvrb / phylodynamics-lecture
  Lecture on viral phylodynamics
  ☆12Updated 3 years ago
• sjspielman / phyphy
  Python HyPhy: Facilitating HyPhy execution and parsing
  ☆21Updated 3 years ago
• SchlossLab / schtools
  Schloss Lab Tools for Reproducible Microbiome Research 💩
  ☆30Updated last year
• alvinxhan / PhyCLIP
  Phylogenetic Clustering by Linear Integer Programming (PhyCLIP)
  ☆18Updated 4 years ago
• bdearlove / Phylogeography-in-BEAST
  Inferring spatiotemporal dynamics of H5N1 influenza from sequence data
  ☆9Updated 10 years ago
• tothuhien / Rlsd2
  An R-wrapper for lsd2
  ☆9Updated last year
• ktrappe / daisy
  Horizontal Gene Transfer Detection by Mapping Sequencing Reads
  ☆21Updated 7 years ago
• tgvaughan / bacter
  Bacterial phylogenetics in BEAST 2.
  ☆17Updated last year
• GuangchuangYu / plotTree-ggtree
  ggtree version of plotTree.R
  ☆18Updated 6 years ago
• andersgs / harrietr
  An `R` package for various phylogenetic and evolutionary biology data manipulations
  ☆12Updated 7 years ago
• BDI-pathogens / phyloscanner
  Phylogenetics between and within hosts at once, all along the genome.
  ☆48Updated 5 months ago
• sanger-pathogens / gff3toembl
  Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
  ☆29Updated 6 years ago
• LynchLab / MAPGD
  A program for the Maximum-likelihood analysis of population genomic data.
  ☆28Updated 3 years ago
• blab / global-migration
  Analysis of global migration patterns of seasonal influenza viruses
  ☆22Updated 5 years ago
• cboursnell / transfuse
  Merge transcriptome assemblies
  ☆30Updated 8 years ago
• tgvaughan / MultiTypeTree
  BEAST 2 package which provides support for multi-type trees: phylogenetic trees on structured populations.
  ☆21Updated 2 weeks ago
• blab / zika-seq
  Pipelines to do MinION sequencing of Zika virus
  ☆15Updated 5 years ago
• microsud / microbiomeutilities
  The is mostly a wrapper tool using phyloseq and microbiome R packages.
  ☆34Updated 2 years ago
• pomo-dev / PoMo
  Implementation of a polymorphism aware phylogenetic model using HYPHY
  ☆19Updated 3 years ago
• KasperSkytte / mmgenome2
  Tools for extracting individual genomes from metagenomes
  ☆17Updated last year