Alternatives and similar repositories for pastml:

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

• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆35Updated 2 months ago
• simonwhelan / prequal
  PREQUAL: a pre-alignment quality filter for comparative sequence analyses
  ☆31Updated 2 years ago
• blackrim / phyutility
  ☆21Updated 10 years ago
• ranwez / MACSE_V2_PIPELINES
  This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…
  ☆34Updated last year
• marekborowiec / spruceup
  spruceup
  ☆24Updated 6 months ago
• evolbioinfo / booster
  ☆27Updated 4 years ago
• JosephCrispell / homoplasyFinder
  A tool to identify and annotate homoplasies on a phylogeny and sequence alignment
  ☆20Updated 3 years ago
• ballesterus / Utensils
  Simple scripts for concatenate alignments and rename terminals for phylogenetics
  ☆21Updated 2 years ago
• tothuhien / lsd-0.3beta
  ☆12Updated 5 years ago
• virus-evolution / gofasta
  ☆35Updated last week
• jonas-fuchs / BAMdash
  create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks
  ☆43Updated 6 months ago
• gtonkinhill / pairsnp
  A set of scripts for calculating pairwise SNP distance
  ☆38Updated 2 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆28Updated 7 months ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆24Updated last year
• BenoitMorel / ParGenes
  A massively parallel tool for model selection and tree inference on thousands of genes
  ☆46Updated 11 months ago
• rega-cev / virulign
  VIRULIGN: fast codon-correct alignment and annotation of viral genomes
  ☆32Updated 3 years ago
• clwgg / nQuire
  A statistical framework for ploidy estimation using NGS short-read data
  ☆56Updated 6 years ago
• GATB / gatb-minia-pipeline
  GATB Minia assembly pipeline
  ☆30Updated 2 years ago
• fmenardo / Treemmer
  Python tool to reduce size and redundancy of phylogenetic datasets
  ☆31Updated last year
• veg / hyphy-analyses
  HyPhy standalone analyses
  ☆40Updated this week
• rnajena / poseidon
  PoSeiDon: positive selection detection and recombination analysis pipeline
  ☆36Updated 3 months ago
• JLSteenwyk / PhyKIT
  a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies
  ☆67Updated 2 months ago
• thednainus / Bayesian_tutorial
  Tutorial on Bayesian phylogenetic analysis
  ☆45Updated 7 years ago
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆60Updated 2 years ago
• uym2 / TreeShrink
  Implementation of the TreeShrink problem
  ☆38Updated 5 months ago
• broadinstitute / delphy
  Fast, scalable, accurate and accessible Bayesian phylogenetics
  ☆30Updated 3 weeks ago
• sestaton / Transposome
  A toolkit for annotation of transposable element families from unassembled sequence reads
  ☆30Updated last year
• neherlab / treetime_examples
  A collection of documented examples using TreeTime
  ☆20Updated 5 years ago
• mossmatters / Angiosperms353
  HybSeq Target Capture of 353 Protein Coding Genes in Any Angiosperm
  ☆18Updated 2 years ago
• ssolo / ALE
  Amalgamated likelihood estimation (ALE) is a probabilistic approach to exhaustively explore all reconciled gene trees that can be amalgam…
  ☆46Updated 8 months ago