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
  ☆37Updated 3 months ago
• simonwhelan / prequal
  PREQUAL: a pre-alignment quality filter for comparative sequence analyses
  ☆31Updated 2 years ago
• blackrim / phyutility
  ☆22Updated 11 years ago
• JosephCrispell / homoplasyFinder
  A tool to identify and annotate homoplasies on a phylogeny and sequence alignment
  ☆20Updated 3 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆29Updated 8 months ago
• tothuhien / lsd-0.3beta
  ☆12Updated 5 years ago
• gtonkinhill / pairsnp
  A set of scripts for calculating pairwise SNP distance
  ☆39Updated 2 years ago
• evolbioinfo / booster
  ☆28Updated 4 years ago
• NicolaDM / MAPLE
  MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.
  ☆47Updated 3 weeks ago
• jessiewu / bacterialGWAS
  A pipeline for performing genome-wide association tests for bacterial genomes.
  ☆27Updated 6 years ago
• JLSteenwyk / orthofisher
  a broadly applicable tool for automated gene identification and retrieval
  ☆30Updated 3 months 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
• sjspielman / phyphy
  Python HyPhy: Facilitating HyPhy execution and parsing
  ☆21Updated 3 years ago
• ballesterus / Utensils
  Simple scripts for concatenate alignments and rename terminals for phylogenetics
  ☆21Updated 2 years ago
• BenoitMorel / ParGenes
  A massively parallel tool for model selection and tree inference on thousands of genes
  ☆47Updated last year
• rderelle / Broccoli
  orthology assignment using phylogenetic and network analyses
  ☆46Updated 3 weeks ago
• rega-cev / virulign
  VIRULIGN: fast codon-correct alignment and annotation of viral genomes
  ☆33Updated 3 years ago
• stajichlab / AAFTF
  Automatic Assembly For The Fungi
  ☆19Updated 2 months ago
• bcgsc / ntEdit
  ✏️ Genome assembly polishing & SNV detection
  ☆66Updated last month
• balabanmetin / apples
  distance based phylogenetic placement
  ☆26Updated last year
• JLSteenwyk / PhyKIT
  a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies
  ☆68Updated 3 months ago
• AlexKnyshov / alibaseq
  Alignment-Based Sequence extraction
  ☆15Updated 3 years ago
• NBISweden / aMeta
  Ancient microbiome snakemake workflow
  ☆22Updated 3 months ago
• rrwick / Verticall
  Recombination-free trees
  ☆57Updated last year
• bcgsc / LongStitch
  Correct and scaffold assemblies using long reads
  ☆50Updated last year
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆41Updated 4 years ago
• sanger-pathogens / plasmidtron
  Assembling the cause of phenotypes and genotypes from NGS data
  ☆29Updated 4 years ago
• aaronmussig / PhyloDM
  Efficient calculation of phylogenetic distance matrices.
  ☆46Updated 5 months ago
• USDA-VS / GenoFLU
  Influenza data pipeline to automate genotyping assignment
  ☆29Updated last month
• marbl / MetaCompass
  MetaCompass: Reference-guided Assembly of Metagenomes
  ☆38Updated 4 years ago