Alternatives and similar repositories for beagle-lib

Users that are interested in beagle-lib are comparing it to the libraries listed below

• ddarriba / modeltest
  Best-fit model selection
  ☆85Updated last year
• Cibiv / IQ-TREE
  Efficient phylogenomic software by maximum likelihood
  ☆203Updated 4 years ago
• barricklab / breseq
  breseq is a computational pipeline for finding mutations relative to a reference sequence using high-throughput DNA resequencing data. It…
  ☆173Updated this week
• tseemann / any2fasta
  Convert various sequence formats to FASTA
  ☆139Updated 3 years ago
• hahnlab / CAFE
  Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.
  ☆117Updated 4 years ago
• lastz / lastz
  Program for aligning DNA sequences, a pairwise aligner.
  ☆230Updated 5 months ago
• pierrebarbera / epa-ng
  Massively parallel phylogenetic placement of genetic sequences
  ☆86Updated 3 years ago
• NBISweden / MrBayes
  MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentati…
  ☆256Updated 7 months ago
• faircloth-lab / phyluce
  software for UCE (and general) phylogenomics
  ☆85Updated 8 months ago
• CompEvol / beast2
  Bayesian Evolutionary Analysis by Sampling Trees
  ☆259Updated this week
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆121Updated 3 weeks ago
• fbreitwieser / krakenuniq
  🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results
  ☆240Updated last year
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆116Updated last year
• qiita-spots / qiita
  Qiita - A multi-omics databasing effort
  ☆127Updated 2 months ago
• smirarab / sepp
  Ensemble of HMM methods (SEPP, TIPP, UPP)
  ☆94Updated 3 months ago
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆143Updated last year
• ddarriba / jmodeltest2
  Automatically exported from code.google.com/p/jmodeltest2
  ☆82Updated 4 years ago
• torognes / swarm
  A robust and fast clustering method for amplicon-based studies
  ☆140Updated 2 weeks ago
• beast-dev / beast-mcmc
  Bayesian Evolutionary Analysis Sampling Trees
  ☆230Updated this week
• jessieren / VirFinder
  VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data
  ☆138Updated 5 years ago
• caitiecollins / treeWAS
  treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes
  ☆105Updated 9 months ago
• simroux / VirSorter
  Source code of the VirSorter tool, also available as an App on CyVerse/iVirus (https://de.iplantcollaborative.org/de/)
  ☆101Updated 5 years ago
• neherlab / treetime
  Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction
  ☆247Updated this week
• nickjcroucher / gubbins
  Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
  ☆207Updated 2 months ago
• AstrobioMike / GToTree
  A user-friendly workflow for phylogenomics
  ☆222Updated this week
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆248Updated last year
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆99Updated 6 months ago
• soedinglab / metaeuk
  MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics
  ☆199Updated 2 months ago
• chasewnelson / SNPGenie
  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
  ☆118Updated 2 years ago
• Gabaldonlab / redundans
  Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
  ☆161Updated 7 months ago