Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
☆409Mar 2, 2026Updated 4 months ago
Alternatives and similar repositories for CheckM
Users that are interested in CheckM are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Assessing the quality of metagenome-derived genome bins using machine learning☆271Mar 20, 2025Updated last year
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆615May 20, 2026Updated 2 months ago
- Rapid comparison and dereplication of genomes☆349Updated this week
- hybrid assembly pipeline for bacterial genomes☆648Jul 7, 2026Updated 2 weeks ago
- A toolbox for improving metagenome-assembled genomes.☆64Jun 2, 2021Updated 5 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Rapid prokaryotic genome annotation☆992Jan 6, 2026Updated 6 months ago
- Read alignment statistics for metagenomics☆400Jul 10, 2026Updated last week
- Fast Whole-Genome Similarity (ANI) Estimation☆470Dec 16, 2025Updated 7 months ago
- DAS Tool☆177May 2, 2024Updated 2 years ago
- MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis☆473Jul 28, 2023Updated 2 years ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆663Jul 10, 2026Updated last week
- Fast genome-wide functional annotation through orthology assignment☆754May 22, 2026Updated last month
- Prodigal Gene Prediction Software☆549Jan 23, 2024Updated 2 years ago
- Metagenomic binning suite☆29Sep 30, 2022Updated 3 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Clustering cONtigs with COverage and ComposiTion☆140Mar 6, 2020Updated 6 years ago
- Microbial RNA annotation☆305Apr 12, 2026Updated 3 months ago
- An updated pipeline for pangenome investigation☆365Jul 2, 2026Updated 2 weeks ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆345Sep 11, 2025Updated 10 months ago
- Bioinformatics program inStrain☆191Mar 12, 2026Updated 4 months ago
- A tool to circularize genome assemblies☆257Apr 6, 2024Updated 2 years ago
- SPAdes Genome Assembler☆952Jun 16, 2026Updated last month
- geNomad: Identification of mobile genetic elements☆323Mar 29, 2026Updated 3 months ago
- MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data☆418Updated this week
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Fast taxonomic classification of metagenomic sequencing reads using a protein reference database☆304Jun 9, 2026Updated last month
- Mass screening of contigs for antimicrobial and virulence genes☆501Updated this week
- AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and p…☆378Jul 12, 2026Updated last week
- Variational autoencoder for metagenomic binning☆330Apr 27, 2026Updated 2 months ago
- SemiBin: metagenomics binning with self-supervised deep learning☆172Updated this week
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆233Jul 9, 2026Updated last week
- ☆65Feb 27, 2024Updated 2 years ago
- Fast genome and metagenome distance estimation using MinHash☆447Sep 19, 2025Updated 10 months ago
- Application and Python module for average nucleotide identity analyses of microbes.☆218Jul 1, 2025Updated last year
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Rapid large-scale prokaryote pan genome analysis☆378Nov 3, 2025Updated 8 months ago
- Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes☆335Jun 3, 2026Updated last month
- A hybrid assembly and MAG recovery pipeline (and more!)☆109Jul 10, 2026Updated last week
- 🌈 Interactive analysis of metagenomics data☆453Sep 17, 2025Updated 10 months ago
- Classifier for metagenomic sequences☆278Apr 15, 2026Updated 3 months ago
- customizable pipeline to identify viral sequences from (meta)genomic data☆295Nov 28, 2024Updated last year
- Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…☆425May 20, 2026Updated 2 months ago