Paket: ea-utils (1.1.2+dfsg-9 och andra)

[ Källkod: ea-utils  ]

command-line tools for processing biological sequencing data

Ea-utils provides a set of command-line tools for processing biological sequencing data, barcode demultiplexing, adapter trimming, etc.

Primarily written to support an Illumina based pipeline - but should work with any FASTQs.

Main Tools are:

 * fastq-mcf

Scans a sequence file for adapters, and, based on a log-scaled threshold, determines a set of clipping parameters and performs clipping. Also does skewing detection and quality filtering.

 * fastq-multx

Demultiplexes a fastq. Capable of auto-determining barcode id's based on a master set fields. Keeps multiple reads in-sync during demultiplexing. Can verify that the reads are in-sync as well, and fail if they're not.

 * fastq-join

Similar to audy's stitch program, but in C, more efficient and supports some automatic benchmarking and tuning. It uses the same "squared distance for anchored alignment" as other tools.

 * varcall

Takes a pileup and calculates variants in a more easily parameterized manner than some other tools.

Andra paket besläktade med ea-utils

• dep: libc6 (>= 2.37) [sh4]

  GNU C-bibliotek: Delade bibliotek
  också ett virtuellt paket som tillhandahålls av libc6-udeb

  dep: libc6 (>= 2.38) [ej alpha, ia64, sh4]

• dep: libc6.1 (>= 2.32) [ia64]

  GNU C-bibliotek: Delade bibliotek
  också ett virtuellt paket som tillhandahålls av libc6.1-udeb

  dep: libc6.1 (>= 2.34) [alpha]

• dep: libgcc-s1 (>= 3.0) [amd64, arm64, mips64el, ppc64, ppc64el, s390x, x32]

  GCC stödbibliotek

  dep: libgcc-s1 (>= 3.4) [alpha, riscv64, sh4, sparc64]

  dep: libgcc-s1 (>= 3.5) [armel, armhf]

  dep: libgcc-s1 (>= 4.2) [i386, ia64]

• dep: libgcc-s2 (>= 4.2.1) [m68k]

  GCC stödbibliotek

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC stödbibliotek

• dep: libgsl27 (>= 2.7.1) [ia64]

  GNU Scientific Library (GSL) -- library package

• dep: libgsl28 (>= 2.8+dfsg) [ej ia64]

  GNU Scientific Library (GSL) -- library package

• dep: libgslcblas0 (>= 2.8) [sparc64]

  GNU Scientific Library (GSL) -- blas library package

• dep: libstdc++6 (>= 11) [ia64]

  GNU standardbibliotek v3 för C++

  dep: libstdc++6 (>= 13.1) [ej ia64]

• dep: libunwind8 [ia64]

  library to determine the call-chain of a program - runtime

• dep: r-base-core

  GNU R core of statistical computation and graphics system

• dep: r-cran-formula

  GNU R package for extended model formulas

• dep: r-cran-getopt

  GNU R package providing command-line parsing functionality

• dep: r-cran-ggplot2

  implementation of the Grammar of Graphics

• dep: r-cran-hmisc

  GNU R miscellaneous functions by Frank Harrell

• dep: r-cran-lattice

  GNU R package for 'Trellis' graphics

• dep: r-cran-survival

  GNU R package for survival analysis

• dep: zlib1g (>= 1:1.2.3.3)

  Kompressionsbibliotek - körtidspaket

• rec: med-config (>= 2.1)

  Debian Med general config package

Hämta ea-utils

Hämtningar för alla tillgängliga arkitekturer

Arkitektur	Version	Paketstorlek	Installerad storlek	Filer
alpha (inofficiell anpassning)	1.1.2+dfsg-9+b2	239,0 kbyte	1.069,0 kbyte	[filförteckning]
amd64	1.1.2+dfsg-9+b3	239,9 kbyte	762,0 kbyte	[filförteckning]
arm64	1.1.2+dfsg-9+b3	215,3 kbyte	1.002,0 kbyte	[filförteckning]
armel	1.1.2+dfsg-9+b3	213,0 kbyte	699,0 kbyte	[filförteckning]
armhf	1.1.2+dfsg-9+b3	210,8 kbyte	547,0 kbyte	[filförteckning]
hppa (inofficiell anpassning)	1.1.2+dfsg-9+b2	236,4 kbyte	747,0 kbyte	[filförteckning]
i386	1.1.2+dfsg-9+b3	250,4 kbyte	779,0 kbyte	[filförteckning]
ia64 (inofficiell anpassning)	1.1.2+dfsg-9+b1	300,4 kbyte	1.332,0 kbyte	[filförteckning]
m68k (inofficiell anpassning)	1.1.2+dfsg-9+b2	218,7 kbyte	731,0 kbyte	[filförteckning]
mips64el	1.1.2+dfsg-9+b3	232,0 kbyte	1.093,0 kbyte	[filförteckning]
ppc64 (inofficiell anpassning)	1.1.2+dfsg-9+b2	242,5 kbyte	1.066,0 kbyte	[filförteckning]
ppc64el	1.1.2+dfsg-9+b3	243,5 kbyte	1.066,0 kbyte	[filförteckning]
riscv64	1.1.2+dfsg-9+b2	234,3 kbyte	638,0 kbyte	[filförteckning]
s390x	1.1.2+dfsg-9+b3	234,9 kbyte	786,0 kbyte	[filförteckning]
sh4 (inofficiell anpassning)	1.1.2+dfsg-9+b2	262,5 kbyte	998,0 kbyte	[filförteckning]
sparc64 (inofficiell anpassning)	1.1.2+dfsg-9+b2	214,9 kbyte	7.288,0 kbyte	[filförteckning]
x32 (inofficiell anpassning)	1.1.2+dfsg-9+b2	237,3 kbyte	735,0 kbyte	[filförteckning]