Alternatives and similar repositories for centrifuger

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

• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆70Updated 3 years ago
• shandley / hecatomb
  hecatomb is a virome analysis pipeline for analysis of Illumina sequence data
  ☆57Updated 2 weeks ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆85Updated last month
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆40Updated 6 months ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆86Updated 3 months ago
• Kirk3gaard / 2023-basecalling-benchmarks
  ☆30Updated last year
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆44Updated 4 years ago
• dietvin / pod5Viewer
  GUI for inspecting POD5 files
  ☆29Updated 5 months ago
• nanoporetech / duplex-tools
  Splitting of sequence reads by internal adapter sequence search
  ☆51Updated 2 years ago
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆34Updated last year
• bvalot / pyMLST
  whole genome MLST analysis
  ☆43Updated 2 months ago
• nanoporetech / pipeline-umi-amplicon
  Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers
  ☆33Updated last year
• refresh-bio / vclust
  Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes
  ☆79Updated 2 weeks ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆51Updated 3 years ago
• oma219 / spumoni
  Pan-Genomic Matching Statistics
  ☆52Updated last year
• marbl / harvest
  ☆52Updated 4 years ago
• shenwei356 / gtdb-taxdump
  GTDB taxonomy taxdump files with trackable TaxIds
  ☆53Updated last month
• sirselim / guppy_parameter_optimiser
  A small bash script that automates sweeping Guppy parameters in an attempt to optimise basecalling rate
  ☆30Updated 3 years ago
• kjenike / panagram
  ☆62Updated last week
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆49Updated 3 years ago
• kussell-lab / mcorr
  Inferring bacterial recombination rates from large-scale sequencing datasets.
  ☆42Updated 2 years ago
• PacificBiosciences / jasmine
  Call select base modifications in PacBio HiFi reads
  ☆7Updated 4 months ago
• PombertLab / SYNY
  The SYNY pipeline investigates synteny between species by reconstructing protein clusters from gene pairs.
  ☆42Updated 2 months ago
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆90Updated last month
• bcgsc / ntSynt
  Detecting multi-genome synteny using minimizer graph mapping
  ☆78Updated last month
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆48Updated 3 weeks ago
• yangao07 / longcallD
  A local-haplotagging-based small and structural variant caller
  ☆78Updated 3 weeks ago
• wdecoster / nanolyse
  Remove lambda phage reads from a fastq file
  ☆29Updated 2 years ago
• adlape95 / Assembly-methods-nanopore
  Assembly methods for nanopore-based metagenomic sequencing: a comparative study
  ☆18Updated 5 years ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 3 years ago