Alternatives and similar repositories for beast2

Users that are interested in beast2 are comparing it to the libraries listed below

• beast-dev / beast-mcmc
  Bayesian Evolutionary Analysis Sampling Trees
  ☆204Updated this week
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆312Updated last year
• NBISweden / MrBayes
  MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentati…
  ☆244Updated last month
• beagle-dev / beagle-lib
  general purpose library for evaluating the likelihood of sequence evolution on trees
  ☆134Updated 3 weeks ago
• rambaut / figtree
  Automatically exported from code.google.com/p/figtree
  ☆423Updated last year
• mmatschiner / tutorials
  Tutorials on phylogenetic and phylogenomic inference
  ☆385Updated last year
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆322Updated last year
• mfumagalli / ngsTools
  Programs to analyse NGS data for population genetics purposes
  ☆174Updated 9 months ago
• ANGSD / angsd
  Program for analysing NGS data.
  ☆236Updated 3 months ago
• tseemann / any2fasta
  Convert various sequence formats to FASTA
  ☆136Updated 2 years ago
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆242Updated last year
• simonhmartin / genomics_general
  General tools for genomic analyses.
  ☆362Updated 3 months ago
• stamatak / standard-RAxML
  ☆341Updated 3 months ago
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆363Updated 3 years ago
• Cibiv / IQ-TREE
  Efficient phylogenomic software by maximum likelihood
  ☆202Updated 3 years ago
• ndierckx / NOVOPlasty
  NOVOPlasty - The organelle assembler and heteroplasmy caller
  ☆188Updated last year
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆212Updated last year
• lh3 / psmc
  Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model
  ☆167Updated 2 years ago
• tseemann / shovill
  ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads
  ☆225Updated 2 years ago
• jenniferlu717 / Bracken
  Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…
  ☆310Updated 3 months ago
• amkozlov / raxml-ng
  RAxML Next Generation: faster, easier-to-use and more flexible
  ☆428Updated this week
• nickjcroucher / gubbins
  Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
  ☆193Updated 2 months ago
• bioinformatics-centre / kaiju
  Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
  ☆281Updated last month
• nf-core / eager
  A fully reproducible and state-of-the-art ancient DNA analysis pipeline
  ☆169Updated this week
• ncbi / pgap
  NCBI Prokaryotic Genome Annotation Pipeline
  ☆338Updated this week
• sanger-pathogens / snp-sites
  Finds SNP sites from a multi-FASTA alignment file
  ☆260Updated 4 years ago
• iqtree / iqtree2
  IQ-TREE software version 2: phylogenetics by maximum likelihood
  ☆285Updated last month
• DReichLab / EIG
  Eigen tools by Nick Patterson and Alkes Price lab
  ☆184Updated last year
• KamilSJaron / smudgeplot
  Inference of ploidy and heterozygosity structure using whole genome sequencing data
  ☆269Updated 2 weeks ago
• mossmatters / HybPiper
  Recovering genes from targeted sequence capture data
  ☆123Updated 5 months ago