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[ Paquet source : spades  ]

Paquet : spades (3.13.1+dfsg-2ubuntu1)

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spades

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genome assembler for single-cell and isolates data sets

The SPAdes – St. Petersburg genome assembler is intended for both standard isolates and single-cell MDA bacteria assemblies. It works with Illumina or IonTorrent reads and is capable of providing hybrid assemblies using PacBio and Sanger reads. You can also provide additional contigs that will be used as long reads.

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  • dep: bamtools
    toolkit for manipulating BAM (genome alignment) files
  • dep: bwa
    Burrows-Wheeler Aligner
  • dep: libc6 (>= 2.34)
    GNU C Library: Shared libraries
    un paquet virtuel est également fourni par libc6-udeb
  • dep: libgcc-s1 (>= 4.0)
    GCC support library
  • dep: libgomp1 (>= 6)
    GCC OpenMP (GOMP) support library
  • dep: libhat-trie0
    HAT-trie, an extremely efficient (space and time) modern variant of tries
  • dep: libnlopt0 (>= 2.6.1)
    nonlinear optimization library
  • dep: libssw0 (>= 1.1)
    fast SIMD parallelized implementation of the Smith-Waterman algorithm
  • dep: libstdc++6 (>= 11)
    GNU Standard C++ Library v3
  • dep: python3
    interactive high-level object-oriented language (default python3 version)
  • dep: python3-distutils
    distutils package for Python 3.x
  • dep: python3-joblib
    tools to provide lightweight pipelining in Python
  • dep: python3-yaml
    YAML parser and emitter for Python3
  • dep: samtools
    processing sequence alignments in SAM, BAM and CRAM formats
  • dep: zlib1g (>= 1:1.2.3.3)
    compression library - runtime

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