Kraken 2
Fast k-mer based taxonomic classification of metagenomic reads.
| Category | Microbiome & metagenomics |
|---|---|
| GitHub | DerrickWood/kraken2 |
| First public | 2018-06-26 (source) |
| Paper | https://doi.org/10.1186/s13059-019-1891-0 |
| License | MIT |
| Pricing | Open source |
| Tags | #metagenomics#classification#k-mer |
| Last checked | 2026-10-16 |
Specs
| Input | Metagenomic sequence reads |
|---|---|
| Task | k-mer taxonomic classification (+ translated search) |
| Reference database | — |
| GitHub stars | 943 |
| Interface | — |
Specs come from each project's README, paper or official page · Kraken 2 README · Kraken 2 paper. “—” means we couldn't verify it.
Compare with…
Pick 1–3 other Microbiome & metagenomics tools to compare side by side with Kraken 2.
Related
Marker-gene-based taxonomic profiling of metagenomes, including uncharacterized species.
Microbiome & metagenomicsOpen source#metagenomics#profiling
Functional profiling of metagenomes and metatranscriptomes (gene families and pathways).
Microbiome & metagenomicsOpen source#metagenomics#functional
Assigns GTDB taxonomy to bacterial and archaeal genomes and MAGs.
Microbiome & metagenomicsOpen source#taxonomy#mags