Alternatives and similar repositories for snp-dists

Users that are interested in snp-dists are comparing it to the libraries listed below

• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆115Updated last year
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆141Updated last year
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆116Updated 3 weeks ago
• nmquijada / tormes
  Making whole bacterial genome sequencing data analysis easy
  ☆108Updated 2 months ago
• lskatz / mashtree
  Create a tree using Mash distances
  ☆167Updated last year
• marbl / parsnp
  Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…
  ☆145Updated 2 months ago
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆131Updated 2 months ago
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆148Updated 3 weeks ago
• aineniamh / snipit
  snipit: summarise snps relative to your reference sequence
  ☆163Updated 2 months ago
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆126Updated 4 years ago
• tseemann / any2fasta
  Convert various sequence formats to FASTA
  ☆136Updated 2 years ago
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆86Updated this week
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆202Updated 10 months ago
• mikolmogorov / Ragout
  Chromosome-level scaffolding using multiple references
  ☆160Updated 10 months ago
• phac-nml / mob-suite
  MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  ☆152Updated 3 months ago
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆98Updated 3 years ago
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆151Updated last week
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆86Updated last year
• ncbi / SKESA
  SKESA assembler
  ☆120Updated 9 months ago
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆172Updated 4 years ago
• klebgenomics / Kleborate
  ☆127Updated 2 weeks ago
• jameshadfield / phandango
  an interactive viewer for populations of bacterial genomes linked by a phylogeny
  ☆125Updated last year
• rrwick / Polypolish
  a short-read polishing tool for long-read assemblies
  ☆171Updated last year
• chasewnelson / SNPGenie
  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
  ☆115Updated last year
• LomanLab / mockcommunity
  Long-read mock community experiments
  ☆105Updated 3 years ago
• EBI-Metagenomics / emg-viral-pipeline
  VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
  ☆137Updated 2 weeks ago
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆131Updated 3 months ago
• artic-network / fieldbioinformatics
  The ARTIC field bioinformatics pipeline
  ☆125Updated last month
• genomicsITER / NanoCLUST
  NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads
  ☆110Updated last year
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆122Updated last year