🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results
☆244Jan 18, 2024Updated 2 years ago
Alternatives and similar repositories for krakenuniq
Users that are interested in krakenuniq are comparing it to the libraries listed below
Sorting:
- 🌈 Interactive analysis of metagenomics data☆442Sep 17, 2025Updated 5 months ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆368Aug 1, 2025Updated 7 months ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆70Apr 9, 2024Updated last year
- Classifier for metagenomic sequences☆271Jun 20, 2025Updated 8 months ago
- Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…☆340Feb 26, 2025Updated last year
- hybrid assembly pipeline for bacterial genomes☆634Jul 25, 2024Updated last year
- The second version of the Kraken taxonomic sequence classification system☆875Feb 19, 2026Updated 2 weeks ago
- Quickly search, compare, and analyze genomic and metagenomic data sets.☆540Updated this week
- A tool to circularize genome assemblies☆253Apr 6, 2024Updated last year
- Accurate metagenomic profiling && Fast large-scale sequence/genome searching☆207Sep 22, 2023Updated 2 years ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆236Oct 12, 2025Updated 4 months ago
- Antimicrobial Resistance Identification By Assembly☆185Oct 12, 2023Updated 2 years ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆124Aug 24, 2023Updated 2 years ago
- Fast taxonomic classification of metagenomic sequencing reads using a protein reference database☆301Apr 25, 2025Updated 10 months ago
- Rapid haploid variant calling and core genome alignment☆569Dec 12, 2025Updated 2 months ago
- Fast genome and metagenome distance estimation using MinHash☆436Sep 19, 2025Updated 5 months ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆119Dec 13, 2024Updated last year
- Interactively explore metagenomes and more from a web browser.☆493Dec 22, 2021Updated 4 years ago
- Mass screening of contigs for antimicrobial and virulence genes☆482Jan 31, 2026Updated last month
- A tool for generating consensus long-read assemblies for bacterial genomes☆341Sep 11, 2025Updated 5 months ago
- Kraken taxonomic sequence classification system☆221Sep 27, 2021Updated 4 years ago
- SKESA assembler☆125Oct 11, 2024Updated last year
- An updated pipeline for pangenome investigation☆345Jan 15, 2026Updated last month
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆666Dec 3, 2022Updated 3 years ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆607Feb 18, 2026Updated 2 weeks ago
- Pairwise SNP distance matrix from a FASTA sequence alignment☆153Dec 31, 2025Updated 2 months ago
- Create a tree using Mash distances☆184Oct 24, 2023Updated 2 years ago
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆582Feb 21, 2026Updated 2 weeks ago
- map Illumina metagenomes to genomes!☆38Jan 22, 2026Updated last month
- Fast Whole-Genome Similarity (ANI) Estimation☆448Dec 16, 2025Updated 2 months ago
- Rapid comparison and dereplication of genomes☆328Nov 10, 2025Updated 3 months ago
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,297Jan 22, 2026Updated last month
- Split Kmer Analysis☆66May 26, 2022Updated 3 years ago
- Reorients assembled microbial sequences☆135Aug 21, 2025Updated 6 months ago
- Scalable creating/updating of metagenome profiling databases☆62Jun 25, 2025Updated 8 months ago
- Read alignment statistics for metagenomics☆390Jan 16, 2026Updated last month
- base-accurate DNA sequence alignments using WFA and mashmap3☆210Updated this week
- Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…☆402Updated this week
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago