Alternatives and similar repositories for dfast_core:

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

• xiezhq / ISEScan
  A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
  ☆90Updated last year
• rrwick / Metagenomics-Index-Correction
  ☆79Updated last year
• rrwick / Autocycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆97Updated 3 weeks ago
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆101Updated 3 years ago
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆115Updated last year
• patrickwest / EukRep
  Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets
  ☆69Updated 8 months ago
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆116Updated 3 weeks ago
• moshi4 / ANIclustermap
  A tool for drawing ANI clustermap between all-vs-all microbial genomes
  ☆73Updated 5 months ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 2 years ago
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆122Updated 3 months ago
• thanhleviet / ISfinder-sequences
  Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…
  ☆62Updated 4 years ago
• gem-pasteur / PanACoTA
  PANgenome with Annotations, COre identification, Tree and corresponding Alignments
  ☆73Updated last year
• jhawkey / IS_mapper
  IS mapping software
  ☆53Updated 3 years ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆70Updated 3 years ago
• DeniRibicic / q2ONT
  Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2
  ☆28Updated 5 years ago
• gbouras13 / dnaapler
  Reorients assembled microbial sequences
  ☆109Updated last week
• avierstr / amplicon_sorter
  Sorts amplicons from Nanopore sequencing data based on similarity
  ☆34Updated 4 months ago
• Hydro3639 / NanoPhase
  Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …
  ☆31Updated last year
• adlape95 / Assembly-methods-nanopore
  Assembly methods for nanopore-based metagenomic sequencing: a comparative study
  ☆18Updated 4 years ago
• linsalrob / PhiSpy
  Prediction of prophages from bacterial genomes
  ☆75Updated last year
• mjsull / Easyfig
  Development version of Easyfig
  ☆93Updated last year
• PacificBiosciences / HiFi-16S-workflow
  Nextflow pipeline to analyze PacBio HiFi full-length 16S data
  ☆66Updated last week
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆70Updated 5 years ago
• moshi4 / COGclassifier
  A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category
  ☆60Updated 5 months ago
• songweizhi / MetaCHIP
  Horizontal gene transfer (HGT) identification pipeline
  ☆56Updated last year
• rhysf / Synima
  Synteny Imager
  ☆60Updated 5 months ago
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆44Updated 3 weeks ago
• fanglab / nanodisco
  nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…
  ☆68Updated 2 years ago
• shenwei356 / gtdb-taxdump
  GTDB taxonomy taxdump files with trackable TaxIds
  ☆52Updated 9 months ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆57Updated 10 months ago