BEAR Applications

Kraken2 2.1.2-gompi-2021b

Deprecated: Use of this version of Kraken2 is deprecated. More information on our Applications Support and Retention Policy.

Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies. Previous attempts by other bioinformatics software to accomplish this task have often used sequence alignment or machine learning techniques that were quite slow, leading to the development of less sensitive but much faster abundance estimation programs. Kraken aims to achieve high sensitivity and high speed by utilizing exact alignments of k-mers and a novel classification algorithm.

Accessing Kraken2 2.1.2-gompi-2021b

To load the module for Kraken2 2.1.2-gompi-2021b please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):

module load Kraken2/2.1.2-gompi-2021b

BEAR Apps Version

2018b

Downloading data with kraken2-build

If you receive errors messages about rsync failing to connect then try using the --use-ftp option instead.

More Information

For more information visit the Kraken2 website.

Dependencies

This version of Kraken2 has a direct dependency on: BLAST+/2.12.0-gompi-2021b gompi/2021b Perl/5.34.0-GCCcore-11.2.0 wget/1.21.2-GCCcore-11.2.0

Other Versions

These versions of Kraken2 are available on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Last modified on 12th July 2022