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[ Источник: salmon  ]

Пакет: salmon (1.4.0+ds1-1build1)

wicked-fast transcript quantification from RNA-seq data

Salmon is a wicked-fast program to produce a highly-accurate, transcript-level quantification estimates from RNA-seq data. Salmon achieves is accuracy and speed via a number of different innovations, including the use of lightweight alignments (accurate but fast-to-compute proxies for traditional read alignments) and massively-parallel stochastic collapsed variational inference. The result is a versatile tool that fits nicely into many different pipelines. For example, you can choose to make use of the lightweight alignments by providing Salmon with raw sequencing reads, or, if it is more convenient, you can provide Salmon with regular alignments (e.g. computed with your favorite aligner), and it will use the same wicked-fast, state-of-the-art inference algorithm to estimate transcript-level abundances for your experiment.

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  • dep: libboost-filesystem1.74.0 (>= 1.74.0)
    filesystem operations (portable paths, iteration over directories, etc) in C++
  • dep: libboost-iostreams1.74.0 (>= 1.74.0)
    Boost.Iostreams Library
  • dep: libboost-program-options1.74.0 (>= 1.74.0)
    program options library for C++
  • dep: libc6 (>= 2.29)
    GNU C Library: Shared libraries
    также виртуальный пакет, предоставляемый libc6-udeb
  • dep: libgcc-s1 (>= 4.5)
    GCC support library
  • dep: libjemalloc2 (>= 5.0.0)
    general-purpose scalable concurrent malloc(3) implementation
  • dep: libjs-sphinxdoc (>= 2.4.3-5~)
    JavaScript support for Sphinx documentation
  • dep: libstaden-read14 (>= 1.14.12)
    Staden library for reading and writing DNA sequencing results
  • dep: libstdc++6 (>= 9)
    GNU Standard C++ Library v3
  • dep: libtbb2 (>= 2020.3)
    parallelism library for C++ - runtime files
  • dep: sphinx-rtd-theme-common (>= 0.5.0+dfsg)
    sphinx theme from readthedocs.org (common files)
  • dep: zlib1g (>= 1:1.1.4)
    compression library - runtime

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