Alternatives and similar repositories for anvio

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

• metagenome-atlas / atlas
  ATLAS - Three commands to start analyzing your metagenome data
  ☆391Updated 3 weeks ago
• sanger-pathogens / Roary
  Rapid large-scale prokaryote pan genome analysis
  ☆347Updated 3 years ago
• gamcil / clinker
  Gene cluster comparison figure generator
  ☆578Updated 6 months ago
• oschwengers / bakta
  Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
  ☆514Updated 2 months ago
• eggnogdb / eggnog-mapper
  Fast genome-wide functional annotation through orthology assignment
  ☆622Updated last year
• bxlab / metaWRAP
  MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis
  ☆424Updated last year
• rrwick / Unicycler
  hybrid assembly pipeline for bacterial genomes
  ☆599Updated 10 months ago
• mikolmogorov / Flye
  De novo assembler for single molecule sequencing reads using repeat graphs
  ☆837Updated last month
• Ecogenomics / GTDBTk
  GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.
  ☆524Updated last month
• Ecogenomics / CheckM
  Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
  ☆371Updated 9 months ago
• ablab / quast
  Genome assembly evaluation tool
  ☆440Updated 6 months ago
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆363Updated 3 years ago
• fbreitwieser / pavian
  🌈 Interactive analysis of metagenomics data
  ☆420Updated 8 months ago
• arpcard / rgi
  Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…
  ☆369Updated last month
• jenniferlu717 / KrakenTools
  KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
  ☆342Updated last year
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆322Updated last year
• tseemann / abricate
  Mass screening of contigs for antimicrobial and virulence genes
  ☆420Updated last year
• jtamames / SqueezeMeta
  A complete pipeline for metagenomic analysis
  ☆416Updated this week
• nanoporetech / medaka
  Sequence correction provided by ONT Research
  ☆458Updated 2 weeks ago
• bactopia / bactopia
  A flexible pipeline for complete analysis of bacterial genomes
  ☆459Updated 3 weeks ago
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆543Updated 10 months ago
• rrwick / Porechop
  adapter trimmer for Oxford Nanopore reads
  ☆362Updated last year
• tseemann / barrnap
  Bacterial ribosomal RNA predictor
  ☆245Updated last year
• wwood / CoverM
  Read alignment statistics for metagenomics
  ☆346Updated last week
• bioinformatics-centre / kaiju
  Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
  ☆281Updated last month
• chhylp123 / hifiasm
  Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
  ☆632Updated 2 months ago
• tseemann / snippy
  Rapid haploid variant calling and core genome alignment
  ☆519Updated 10 months ago
• MrOlm / drep
  Rapid comparison and dereplication of genomes
  ☆295Updated last month
• nf-core / ampliseq
  Amplicon sequencing analysis workflow using DADA2 and QIIME2
  ☆206Updated this week
• franciscozorrilla / metaGEM
  An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within micro…
  ☆239Updated 10 months ago