Kraken2

Kraken2 is 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.

Profile Format

A tab-separated kraken-report output file with either six or eight columns as described in the documentation. This is generated with the Kraken2 parameter --report. Taxpasta interprets the columns as follows:

Column Header	Description
percent
clade_assigned_reads
direct_assigned_reads1
num_minimizers	optional
distinct_minimizers	optional
taxonomy_lvl
taxonomy_id
name

Example

 99.98  787758  787758  U   0   unclassified
  0.02  119 0   R   1   root
  0.02  119 0   R1  131567    cellular organisms
  0.02  119 0   D   2759        Eukaryota
  0.02  119 0   D1  33154         Opisthokonta
  0.01  96  0   K   4751            Fungi
  0.01  96  0   K1  451864            Dikarya

---

1. Value used in standardised profile output ↩