Centrifuge 1.0.4-gompi-2020b

Centrifuge is a novel microbial classification engine that enables rapid, accurate and sensitive labeling of reads and quantification of species on desktop computers. The system uses a novel indexing scheme based on the Burrows-Wheeler transform (BWT) and the Ferragina-Manzini (FM) index, optimized specifically for the metagenomic classification problem. Centrifuge requires a relatively small index (4.7 GB for all complete bacterial and viral genomes plus the human genome) and classifies sequences at very high speed, allowing it to process the millions of reads from a typical high-throughput DNA sequencing run within a few minutes. Together these advances enable timely and accurate analysis of large metagenomics data sets on conventional desktop computers.

Accessing Centrifuge 1.0.4-gompi-2020b

To load the module for Centrifuge 1.0.4-gompi-2020b please use this command on the BEAR systems (BlueBEAR and BEAR Cloud VMs):

📋 module load Centrifuge/1.0.4-gompi-2020b

BEAR Apps Version

2020b

Architectures

EL8-cascadelake — EL8-icelake — EL8-sapphirerapids

The listed architectures consist of two part: OS-CPU. The OS used is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.

More Information

For more information visit the Centrifuge website.

Dependencies

This version of Centrifuge has a direct dependency on: gompi/2020b ncbi-vdb/2.10.9-gompi-2020b NGS/2.10.9-GCCcore-10.2.0

Other Versions

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

Last modified on 22nd December 2021