The second version of the Kraken taxonomic sequence classification system
☆912Jun 10, 2026Updated this week
Alternatives and similar repositories for kraken2
Users that are interested in kraken2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…☆354Mar 16, 2026Updated 3 months ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆375Aug 1, 2025Updated 10 months ago
- 🌈 Interactive analysis of metagenomics data☆453Sep 17, 2025Updated 8 months ago
- Interactively explore metagenomes and more from a web browser.☆501Dec 22, 2021Updated 4 years ago
- Ultra-fast and memory-efficient (meta-)genome assembler☆719Oct 28, 2025Updated 7 months 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.
- MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data☆409Jun 8, 2026Updated last week
- SPAdes Genome Assembler☆942Updated this week
- Classifier for metagenomic sequences☆274Apr 15, 2026Updated 2 months ago
- MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis☆472Jul 28, 2023Updated 2 years ago
- hybrid assembly pipeline for bacterial genomes☆643Jul 25, 2024Updated last year
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,374Jun 1, 2026Updated 2 weeks ago
- Kraken taxonomic sequence classification system☆226Sep 27, 2021Updated 4 years ago
- Fast taxonomic classification of metagenomic sequencing reads using a protein reference database☆302Updated this week
- 🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results☆249Jan 18, 2024Updated 2 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Rapid prokaryotic genome annotation☆986Jan 6, 2026Updated 5 months ago
- De novo assembler for single molecule sequencing reads using repeat graphs☆937Apr 3, 2026Updated 2 months ago
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆606May 20, 2026Updated 3 weeks ago
- Accelerated BLAST compatible local sequence aligner.☆1,301Jun 9, 2026Updated last week
- Prodigal Gene Prediction Software☆542Jan 23, 2024Updated 2 years ago
- AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and p…☆371May 22, 2026Updated 3 weeks ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆650May 15, 2026Updated last month
- Fast genome and metagenome distance estimation using MinHash☆444Sep 19, 2025Updated 8 months ago
- Genome assembly evaluation tool☆513Updated this week
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…☆421May 20, 2026Updated 3 weeks ago
- Mass screening of contigs for antimicrobial and virulence genes☆495Apr 3, 2026Updated 2 months ago
- Recentrifuge: robust comparative analysis and contamination removal for metagenomics☆102Feb 10, 2026Updated 4 months ago
- Fast genome-wide functional annotation through orthology assignment☆743May 22, 2026Updated 3 weeks ago
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆409Mar 2, 2026Updated 3 months ago
- HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).☆246Jun 5, 2026Updated last week
- quality filtering tool for long reads☆404Sep 17, 2025Updated 8 months ago
- adapter trimmer for Oxford Nanopore reads☆384May 8, 2024Updated 2 years ago
- Rapid haploid variant calling and core genome alignment☆586Dec 12, 2025Updated 6 months ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.☆150Dec 17, 2025Updated 5 months ago
- customizable pipeline to identify viral sequences from (meta)genomic data☆291Nov 28, 2024Updated last year
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,197May 19, 2026Updated 3 weeks ago
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆673Dec 3, 2022Updated 3 years ago
- bioBakery tools for meta'omic profiling☆317Jun 3, 2025Updated last year
- Sequence correction provided by ONT Research☆517May 20, 2026Updated 3 weeks ago
- Mummer alignment tool☆561Feb 4, 2025Updated last year