Kraken2

Kraken 2 is the newest version of Kraken, a taxonomic classification system using exact k-mer matches to achieve high accuracy and fast classification speeds. This classifier matches each k-mer within a query sequence to the lowest common ancestor (LCA) of all genomes containing the given k-mer. The k-mer assignments inform the classification algorithm.

Standard

• Contains: Refeq archaea, bacteria, viral, plasmid, human, UniVec_Core

• Update date: 9/4/2024

• Directory on HPC: /cluster/tufts/biocontainers/datasets/kraken2/k2_standard_20240904

MinusB

• Contains: Refeq archaea, viral, plasmid, human, UniVec_Core

• Update date: 9/4/2024

• Directory on HPC: /cluster/tufts/biocontainers/datasets/kraken2/k2_minusb_20240904

PlusPF

• Contains: Standard plus Refeq protozoa & fungi

• Update date: 9/4/2024

• Directory on HPC: /cluster/tufts/biocontainers/datasets/kraken2/k2_pluspf_20240904

PlusPFP

• Contains: Standard plus Refeq protozoa, fungi & plant

• Update date: 9/4/2024

• Directory on HPC: /cluster/tufts/biocontainers/datasets/kraken2/k2_pluspfp_20240904

core_nt Database

• Contains: Very large collection, inclusive of GenBank, RefSeq, TPA and PDB

• Update date: 9/4/2024

• Directory on HPC: /cluster/tufts/biocontainers/datasets/kraken2/k2_core_nt_20240904