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Пакет: jellyfish (2.2.8-3build1)

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jellyfish

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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.

Други пакети, свързани с jellyfish

  • зависимости
  • препоръчани
  • предложени
  • dep: libc6 (>= 2.14)
    GNU C Library: Shared libraries
    също и виртуален пакет, предлаган от libc6-udeb
  • dep: libgcc1 (>= 1:3.0)
    GCC support library
  • dep: libjellyfish-2.0-2 (= 2.2.8-3build1)
    count k-mers in DNA sequences (dynamic library of jellyfish)
  • dep: libstdc++6 (>= 5.2)
    GNU Standard C++ Library v3

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amd64 349,3 кБ606 кБ [списък на файловете]