Package: jellyfish (2.3.0-15 and others)

[ Source: jellyfish  ]

count k-mers in DNA sequences

JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA. A k-mer is a substring of length k, and counting the occurrences of all such substrings is a central step in many analyses of DNA sequence. JELLYFISH can count k-mers using an order of magnitude less memory and an order of magnitude faster than other k-mer counting packages by using an efficient encoding of a hash table and by exploiting the "compare-and-swap" CPU instruction to increase parallelism.

JELLYFISH is a command-line program that reads FASTA and multi-FASTA files containing DNA sequences. It outputs its k-mer counts in an binary format, which can be translated into a human-readable text format using the "jellyfish dump" command.

Other Packages Related to jellyfish

• dep: libc6 (>= 2.34)

  GNU C könyvtár: megosztott könyvtárak
  also a virtual package provided by libc6-udeb

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

  GCC támogató programkönyvtár

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

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

• dep: libhts3 (>= 1.10)

  C library for high-throughput sequencing data formats

• dep: libjellyfish-2.0-2 (= 2.3.0-15+b3)

  count k-mers in DNA sequences (dynamic library of jellyfish)

• dep: libstdc++6 (>= 11)

  GNU Standard C++ Library v3

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Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
amd64	2.3.0-15+b3	770.4 kB	2,475.0 kB	[list of files]
arm64	2.3.0-15+b3	688.6 kB	2,379.0 kB	[list of files]
armel	2.3.0-15+b3	636.7 kB	1,849.0 kB	[list of files]
armhf	2.3.0-15+b3	661.8 kB	1,433.0 kB	[list of files]
i386	2.3.0-15+b3	754.7 kB	2,261.0 kB	[list of files]
mips64el	2.3.0-15+b3	650.1 kB	3,144.0 kB	[list of files]
ppc64el	2.3.0-15+b3	734.9 kB	2,955.0 kB	[list of files]