Alternatives and similar repositories for ganon

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

• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆78Updated 4 months ago
• oschwengers / asap
  A scalable bacterial genome assembly, annotation and analysis pipeline
  ☆74Updated 2 years ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆98Updated last week
• vrmarcelino / CCMetagen
  Microbiome classification pipeline
  ☆65Updated 8 months ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆81Updated 3 years ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆103Updated 3 weeks ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆67Updated 3 years ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆68Updated 4 years ago
• rrwick / Metagenomics-Index-Correction
  ☆84Updated 2 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆90Updated 2 months ago
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆51Updated 4 years ago
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆103Updated 3 weeks ago
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆55Updated last year
• rrwick / Minipolish
  A tool for Racon polishing of miniasm assemblies
  ☆78Updated 4 months ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago
• FOI-Bioinformatics / flextaxd
  FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…
  ☆67Updated 10 months ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated 3 months ago
• LaborBerlin / ont-assembly-snake
  Snakemake workflow for bacterial genome assembly + polishing for Oxford Nanopore (ONT) sequencing using multiple tools.
  ☆27Updated last year
• ksahlin / NGSpeciesID
  Reference-free clustering and consensus forming of long-read amplicon sequencing
  ☆66Updated 9 months ago
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆35Updated last year
• Shamir-Lab / Recycler
  This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…
  ☆58Updated 4 years ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆47Updated 3 months ago
• rrwick / Verticall
  Recombination-free trees
  ☆63Updated 4 months ago
• denglab / SeqSero2
  SeqSero2
  ☆39Updated 3 months ago
• 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
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆36Updated 4 years ago
• ythuang0522 / homopolish
  High-quality Nanopore-only genome polisher
  ☆69Updated last year
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆63Updated last week
• mourisl / centrifuger
  Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.
  ☆83Updated 3 weeks ago