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centrifuge 1.0.3-2
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  • size: 11,864 kB
  • sloc: cpp: 51,936; perl: 1,919; python: 1,538; makefile: 618; sh: 352
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Source: centrifuge
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Section: science
Priority: optional
Build-Depends: debhelper (>= 11~),
               hisat2,
               jellyfish
Standards-Version: 4.3.0
Vcs-Browser: https://salsa.debian.org/med-team/centrifuge
Vcs-Git: https://salsa.debian.org/med-team/centrifuge.git
Homepage: https://ccb.jhu.edu/software/centrifuge/

Package: centrifuge
Architecture: any
Depends: ${shlibs:Depends},
         ${misc:Depends},
         python,
         hisat2,
         jellyfish
Description: rapid and memory-efficient system for classification of DNA sequences
 Centrifuge is a very rapid and memory-efficient system for the
 classification of DNA sequences from microbial samples, with better
 sensitivity than and comparable accuracy to other leading systems. 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 (e.g., 4.3 GB for ~4,100 bacterial
 genomes) yet provides very fast classification speed, allowing it to
 process a typical DNA sequencing run within an hour. Together these
 advances enable timely and accurate analysis of large metagenomics data
 sets on conventional desktop computers.