Alternatives and similar repositories for recentrifuge

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

• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆146Updated 2 weeks ago
• rrwick / Metagenomics-Index-Correction
  ☆84Updated 2 years ago
• genotoul-bioinfo / dgenies
  Dotplot large Genomes in an Interactive, Efficient and Simple way
  ☆110Updated last week
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆80Updated last month
• bhattlab / kraken2_classification
  Snakemake workflow for metagenomic classification with Kraken2
  ☆66Updated 2 years ago
• BioInf-Wuerzburg / proovread
  PacBio hybrid error correction through iterative short read consensus
  ☆60Updated 6 years ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆60Updated last year
• GenomiqueENS / toulligQC
  A post sequencing QC tool for Oxford Nanopore sequencers
  ☆105Updated 2 weeks ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 4 years ago
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆118Updated last year
• rrwick / Minipolish
  A tool for Racon polishing of miniasm assemblies
  ☆78Updated 3 months ago
• SorenKarst / longread_umi
  ☆81Updated 5 years ago
• nanoporetech / pomoxis
  Analysis components from Oxford Nanopore Research
  ☆96Updated last year
• mourisl / Rcorrector
  Error correction for Illumina RNA-seq reads
  ☆67Updated last year
• bokulich-lab / RESCRIPt
  REference Sequence annotation and CuRatIon Pipeline
  ☆98Updated last month
• fanglab / nanodisco
  nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…
  ☆72Updated 3 years ago
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆126Updated 4 years ago
• replikation / What_the_Phage
  WtP: Phage identification via nextflow and docker or singularity
  ☆104Updated 3 weeks ago
• fbreitwieser / bamcov
  Quickly calculate and visualize sequence coverage in alignment files
  ☆101Updated 6 years ago
• mgalardini / pyseer
  SEER, reimplemented in python 🐍🔮
  ☆126Updated 7 months ago
• bcgsc / ntJoin
  🔗Genome assembly scaffolder using minimizer graphs
  ☆86Updated last year
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆122Updated this week
• genomehubs / blobtoolkit
  Interactive quality assessment of genome assemblies
  ☆116Updated last week
• metagenlab / mummer2circos
  Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments
  ☆106Updated 2 years ago
• 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…
  ☆148Updated 2 months ago
• smdabdoub / kraken-biom
  Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…
  ☆57Updated 3 years ago
• chasewnelson / SNPGenie
  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
  ☆120Updated 2 years ago
• DecodeGenetics / Ratatosk
  Hybrid error correction of long reads using colored de Bruijn graphs
  ☆106Updated 3 months ago
• ddarriba / modeltest
  Best-fit model selection
  ☆85Updated last year
• mjsull / Easyfig
  Development version of Easyfig
  ☆102Updated 2 years ago