Alternatives and similar repositories for treetime_examples

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

• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆40Updated 3 months ago
• NicolaDM / MAPLE
  MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.
  ☆57Updated 2 months ago
• GuyBaele / SpreadGL
  Main development repository for SpreadGL
  ☆20Updated last year
• neherlab / pan-genome-visualization
  Visualization of the pan-genome output by panX
  ☆65Updated 6 months ago
• rpetit3 / vcf-annotator
  Add biological annotations to variants in a given VCF file.
  ☆32Updated 4 years ago
• bioforensics / pytaxonkit
  Python bindings for the TaxonKit library
  ☆41Updated last month
• salzberg-lab / Balrog
  Bacterial Annotation by Learned Representation of Genes
  ☆58Updated 4 years ago
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆70Updated 2 months ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆27Updated 2 years ago
• rega-cev / virulign
  VIRULIGN: fast codon-correct alignment and annotation of viral genomes
  ☆35Updated 4 years ago
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆31Updated 3 months ago
• citiususc / BigSeqKit
  BigSeqKit: a parallel Big Data toolkit to process FASTA and FASTQ files at scale
  ☆56Updated 2 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆33Updated last year
• PedroMTQ / mantis
  A package to annotate protein sequences
  ☆60Updated 10 months ago
• adelq / dnds
  Calculate dN/dS ratio precisely (Ka/Ks) using a codon-by-codon counting method.
  ☆26Updated 7 years ago
• theiagen / public_health_bacterial_genomics
  ☆26Updated 2 years ago
• vinisalazar / metaphor
  Metaphor: a general-purpose workflow for assembly and binning of metagenomes
  ☆40Updated last month
• balabanmetin / uDance
  ☆43Updated last year
• sanger-pathogens / seroba
  k-mer based Pipeline to identify the Serotype from Illumina NGS reads
  ☆25Updated 2 years ago
• ecbush / xenoGI
  Code for detecting genomic island insertions in clades of microbes.
  ☆19Updated 2 years ago
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆50Updated 8 months ago
• balabanmetin / apples
  distance based phylogenetic placement
  ☆27Updated last year
• Golob-Minot / geneshot
  ☆29Updated last year
• fmalmeida / ngs-preprocess
  A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies
  ☆35Updated last year
• chrisquince / STRONG
  Strain Resolution ON Graphs
  ☆49Updated 2 years ago
• dhelekal / CaveDive
  ☆18Updated last year
• theiagen / public_health_viral_genomics
  Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…
  ☆41Updated last year
• quick-lab / SARS-CoV-2
  SARs-CoV-2 Primer schemes
  ☆16Updated 7 months ago
• bhattlab / phanta
  Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes
  ☆71Updated last month
• hsinnan75 / GSAlign
  GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison
  ☆60Updated last year