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Paket: jellyfish (2.3.0-12ubuntu2)

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jellyfish

Trisquel-Ressourcen:

Quellcode-Paket jellyfish herunterladen:

Betreuer:

Original Maintainers:

  • Debian Med Packaging Team (E-Mail-Archiv)
  • Shaun Jackman
  • Andreas Tille
  • Michael R. Crusoe
  • Étienne Mollier

Externe Ressourcen:

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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.

Andere Pakete mit Bezug zu jellyfish

  • hängt ab von
  • empfiehlt
  • schlägt vor
  • dep: libc6 (>= 2.34)
    GNU C Library: Shared libraries
    auch ein virtuelles Paket, bereitgestellt durch libc6-udeb
  • dep: libgcc-s1 (>= 3.3.1)
    GCC support library
  • dep: libhts3 (>= 1.10)
    C library for high-throughput sequencing data formats
  • dep: libjellyfish-2.0-2 (= 2.3.0-12ubuntu2)
    count k-mers in DNA sequences (dynamic library of jellyfish)
  • dep: libstdc++6 (>= 11)
    GNU Standard C++ Library v3

jellyfish herunterladen

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