deb_control_files:
- control
- md5sums
deb_fields:
Architecture: amd64
Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.0), libgomp1 (>= 6), libstdc++6 (>= 11),
ncbi-blast+
Description: "taxonomic classification system using exact k-mer matches\n Kraken\
\ 2 is the newest version of Kraken, a taxonomic classification\n system using\
\ exact k-mer matches to achieve high accuracy and fast\n classification speeds.\
\ This classifier matches each k-mer within a query\n sequence to the lowest common\
\ ancestor (LCA) of all genomes containing\n the given k-mer. The k-mer assignments\
\ inform the classification\n algorithm. [see: Kraken 1's Webpage for more details].\n\
\ .\n Kraken 2 provides significant improvements to Kraken 1, with faster\n database\
\ build times, smaller database sizes, and faster classification\n speeds. These\
\ improvements were achieved by the following updates to the\n Kraken classification\
\ program:\n .\n 1. Storage of Minimizers: Instead of storing/querying entire\
\ k-mers,\n Kraken 2 stores minimizers (l-mers) of each k-mer. The length\
\ of\n each l-mer must be \u2264 the k-mer length. Each k-mer is treated by\n\
\ Kraken 2 as if its LCA is the same as its minimizer's LCA.\n 2. Introduction\
\ of Spaced Seeds: Kraken 2 also uses spaced seeds to\n store and query minimizers\
\ to improve classification accuracy.\n 3. Database Structure: While Kraken 1\
\ saved an indexed and sorted list\n of k-mer/LCA pairs, Kraken 2 uses a compact\
\ hash table. This hash\n table is a probabilistic data structure that allows\
\ for faster\n queries and lower memory requirements. However, this data structure\n\
\ does have a <1% chance of returning the incorrect LCA or returning\n \
\ an LCA for a non-inserted minimizer. Users can compensate for this\n possibility\
\ by using Kraken's confidence scoring thresholds.\n 4. Protein Databases: Kraken\
\ 2 allows for databases built from amino\n acid sequences. When queried,\
\ Kraken 2 performs a six-frame\n translated search of the query sequences\
\ against the database.\n 5. 16S Databases: Kraken 2 also provides support for\
\ databases not\n based on NCBI's taxonomy. Currently, these include the 16S\n\
\ databases: Greengenes, SILVA, and RDP."
Homepage: https://www.ccb.jhu.edu/software/kraken2/
Installed-Size: '1787'
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Package: kraken2
Priority: optional
Section: science
Version: 2.1.2-2
srcpkg_name: kraken2
srcpkg_version: 2.1.2-2