Package: kraken (1.1.1-4 and others)

[ Source: kraken  ]

assigning taxonomic labels to short DNA sequences

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.

In its fastest mode of operation, for a simulated metagenome of 100 bp reads, Kraken processed over 4 million reads per minute on a single core, over 900 times faster than Megablast and over 11 times faster than the abundance estimation program MetaPhlAn. Kraken's accuracy is comparable with Megablast, with slightly lower sensitivity and very high precision.

Other Packages Related to kraken

• dep: jellyfish1

  count k-mers in DNA sequences

• dep: libc6 (>= 2.24) [sh4]

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

  dep: libc6 (>= 2.3.4) [m68k]

  dep: libc6 (>= 2.34) [not alpha, ia64, m68k, sh4]

• dep: libc6.1 (>= 2.33) [alpha]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6.1-udeb

  dep: libc6.1 (>= 2.35) [ia64]

• dep: libgcc-s1 (>= 3.0) [not hppa, ia64, m68k, sh4]

  GCC support library

  dep: libgcc-s1 (>= 4.2) [ia64]

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC support library

• dep: libgcc1 (>= 1:4.2) [sh4]

  Package not available

• dep: libgcc2 (>= 4.2.1) [m68k]

  Package not available

• dep: libgomp1 (>= 4.9) [m68k, sh4]

  GCC OpenMP (GOMP) support library

  dep: libgomp1 (>= 6) [not m68k, sh4]

• dep: libstdc++6 (>= 13.1) [riscv64]

  GNU Standard C++ Library v3

  dep: libstdc++6 (>= 5.2) [not riscv64]

• dep: libunwind8 [ia64]

  library to determine the call-chain of a program - runtime

Download kraken

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
alpha (unofficial port)	1.1.1-4	736.2 kB	1,773.0 kB	[list of files]
amd64	1.1.1-4	734.8 kB	1,531.0 kB	[list of files]
arm64	1.1.1-4	729.2 kB	1,707.0 kB	[list of files]
hppa (unofficial port)	1.1.1-4	739.1 kB	1,530.0 kB	[list of files]
ia64 (unofficial port)	1.1.1-4	749.9 kB	1,700.0 kB	[list of files]
m68k (unofficial port)	0.10.5~beta-4	721.8 kB	1,440.0 kB	[list of files]
mips64el	1.1.1-4	736.3 kB	1,789.0 kB	[list of files]
ppc64 (unofficial port)	1.1.1-4	736.9 kB	1,771.0 kB	[list of files]
ppc64el	1.1.1-4	735.8 kB	1,771.0 kB	[list of files]
riscv64	1.1.1-4+b1	734.2 kB	1,460.0 kB	[list of files]
sh4 (unofficial port)	0.10.5~beta-4	729.3 kB	1,416.0 kB	[list of files]
sparc64 (unofficial port)	1.1.1-4	728.4 kB	7,416.0 kB	[list of files]
x32 (unofficial port)	1.1.1-4	734.8 kB	1,497.0 kB	[list of files]