Package: salmon (0.12.0+ds1-1 and others)

[ Source: salmon  ]

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.

Other Packages Related to salmon

• dep: libboost-chrono1.67.0

  C++ representation of time duration, time point, and clocks

• dep: libboost-filesystem1.67.0

  filesystem operations (portable paths, iteration over directories, etc) in C++

• dep: libboost-iostreams1.67.0

  Boost.Iostreams Library

• dep: libboost-program-options1.67.0

  program options library for C++

• dep: libboost-regex1.67.0 (>= 1.67.0-10)

  regular expression library for C++

• dep: libboost-system1.67.0

  Operating system (e.g. diagnostics support) library

• dep: libboost-timer1.67.0

  C++ wall clock and CPU process timers

• dep: libbz2-1.0

  high-quality block-sorting file compressor library - runtime

• dep: libc6 (>= 2.14)

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

• dep: libdivsufsort3 (>= 2.0.1)

  fast suffix array construction

• dep: libgcc1 (>= 1:3.4)

  GCC támogató programkönyvtár

• dep: libgomp1 (>= 4.2.1)

  GCC OpenMP (GOMP) support library

• dep: libjemalloc2 (>= 5.0.0)

  general-purpose scalable concurrent malloc(3) implementation

• dep: libjs-sphinxdoc (>= 1.0)

  JavaScript support for Sphinx documentation

• dep: liblzma5 (>= 5.1.1alpha+20110809)

  XZ-format compression library

• dep: libstaden-read13

  Staden library for reading and writing DNA sequencing results

• dep: libstdc++6 (>= 7)

  GNU Standard C++ Library v3

• dep: libtbb2 (>= 2017~U7)

  parallelism library for C++ - runtime files

• dep: sphinx-rtd-theme-common (>= 0.4.2+dfsg)

  sphinx theme from readthedocs.org (common files)

• dep: zlib1g (>= 1:1.1.4)

  tömörítő könyvtár - futásidejű

Download salmon

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
amd64	0.12.0+ds1-1+b1	1,322.1 kB	8,746.0 kB	[list of files]