Package: centrifuge (1.0.3-11)

[ Source: centrifuge  ]

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.

Other Packages Related to centrifuge

• dep: hisat2

  graph-based alignment of short nucleotide reads to many genomes

• dep: jellyfish

  count k-mers in DNA sequences

• dep: libc6 (>= 2.34)

  GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

• dep: libgcc-s1 (>= 3.0) [not armel, armhf, i386]

  GCC support library

  dep: libgcc-s1 (>= 3.5) [armel, armhf]

  dep: libgcc-s1 (>= 4.2) [i386]

• dep: libstdc++6 (>= 11)

  GNU Standard C++ Library v3

• dep: python3

  interactive high-level object-oriented language (default python3 version)

Download centrifuge

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Architecture	Package Size	Installed Size	Files
amd64	541.3 kB	1,663.0 kB	[list of files]
arm64	501.1 kB	1,597.0 kB	[list of files]
armel	496.7 kB	1,653.0 kB	[list of files]
armhf	486.7 kB	1,269.0 kB	[list of files]
i386	552.2 kB	1,813.0 kB	[list of files]
mips64el	525.8 kB	1,894.0 kB	[list of files]
ppc64el	564.0 kB	1,853.0 kB	[list of files]