Alternatives and similar repositories for physher

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

• emvolz / treedater
  Scalable relaxed clock phylogenetic dating
  ☆25Updated last month
• dhelekal / CaveDive
  ☆17Updated last year
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆39Updated 2 weeks ago
• balabanmetin / uDance
  ☆41Updated last year
• rega-cev / virulign
  VIRULIGN: fast codon-correct alignment and annotation of viral genomes
  ☆35Updated 4 years ago
• andersgs / harrietr
  An `R` package for various phylogenetic and evolutionary biology data manipulations
  ☆12Updated 7 years ago
• hallamlab / LCAStar
  Alternative taxonomic consensus algorithms based on the NCBI taxonomy tree
  ☆16Updated last year
• gtonkinhill / pairsnp
  A set of scripts for calculating pairwise SNP distance
  ☆42Updated 2 years ago
• aweimann / traitar
  ☆23Updated 2 years ago
• duchene / phylomad
  ☆19Updated last year
• snayfach / IGGsearch
  Metagenomic species profiling with enhanced coverage of the human gut microbiome
  ☆24Updated last year
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆25Updated last year
• dib-lab / 2018-ncbi-lineages
  Extract lineage CSVs from NCBI for use with sourmash lca.
  ☆29Updated 2 years ago
• GuyBaele / SpreadGL
  Main development repository for SpreadGL
  ☆19Updated last year
• yangfangs / physpetools
  PhySpeTree: an automated pipeline for reconstructing phylogenetic species trees
  ☆14Updated last year
• sjspielman / phyphy
  Python HyPhy: Facilitating HyPhy execution and parsing
  ☆21Updated 3 years ago
• jonas-fuchs / SARS-CoV-2-analyses
  Collection of R scripts for SARS-CoV-2 (variant) analyses
  ☆12Updated 2 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆29Updated last year
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆49Updated 3 years ago
• xavierdidelot / TransPhylo
  Reconstruction of transmission trees using genomic data
  ☆63Updated 2 years ago
• simonwhelan / prequal
  PREQUAL: a pre-alignment quality filter for comparative sequence analyses
  ☆32Updated 3 years ago
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 5 years ago
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆25Updated 6 years ago
• liaoherui / VirStrain
  An RNA virus strain-level identification tool for short reads.
  ☆22Updated last year
• mendessoares / MMinte
  ☆16Updated 2 years ago
• emvolz-phylodynamics / treestructure
  ☆18Updated last week
• tgvaughan / bacter
  Bacterial phylogenetics in BEAST 2.
  ☆18Updated 2 years ago
• broadinstitute / delphy
  Fast, scalable, accurate and accessible Bayesian phylogenetics
  ☆40Updated this week
• sgearle / bugwas
  Locus and lineage tests for bacterial GWAS
  ☆29Updated 8 years ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆38Updated 7 months ago