Package: ea-utils (1.1.2+dfsg-9 and others)

[ Source: 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.

Other Packages Related to ea-utils

• dep: libc6 (>= 2.37) [sh4]

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

  dep: libc6 (>= 2.38) [not alpha, ia64, sh4]

• dep: libc6.1 (>= 2.32) [ia64]

  GNU C könyvtár: megosztott könyvtárak
  also a virtual package provided by libc6.1-udeb

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

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

  GCC támogató programkönyvtár

  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 támogató programkönyvtár

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC támogató programkönyvtár

• dep: libgsl27 (>= 2.7.1) [ia64]

  GNU Scientific Library (GSL) -- library package

• dep: libgsl28 (>= 2.8+dfsg) [not 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 Standard C++ Library v3

  dep: libstdc++6 (>= 13.1) [not 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)

  tömörítő könyvtár - futásidejű

• rec: med-config (>= 2.1)

  Debian Med general config package

Download ea-utils

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
alpha (unofficial port)	1.1.2+dfsg-9+b2	239.0 kB	1,069.0 kB	[list of files]
amd64	1.1.2+dfsg-9+b3	239.9 kB	762.0 kB	[list of files]
arm64	1.1.2+dfsg-9+b3	215.3 kB	1,002.0 kB	[list of files]
armel	1.1.2+dfsg-9+b3	213.0 kB	699.0 kB	[list of files]
armhf	1.1.2+dfsg-9+b3	210.8 kB	547.0 kB	[list of files]
hppa (unofficial port)	1.1.2+dfsg-9+b2	236.4 kB	747.0 kB	[list of files]
i386	1.1.2+dfsg-9+b3	250.4 kB	779.0 kB	[list of files]
ia64 (unofficial port)	1.1.2+dfsg-9+b1	300.4 kB	1,332.0 kB	[list of files]
m68k (unofficial port)	1.1.2+dfsg-9+b2	218.7 kB	731.0 kB	[list of files]
mips64el	1.1.2+dfsg-9+b3	232.0 kB	1,093.0 kB	[list of files]
ppc64 (unofficial port)	1.1.2+dfsg-9+b2	242.5 kB	1,066.0 kB	[list of files]
ppc64el	1.1.2+dfsg-9+b3	243.5 kB	1,066.0 kB	[list of files]
riscv64	1.1.2+dfsg-9+b2	234.3 kB	638.0 kB	[list of files]
s390x	1.1.2+dfsg-9+b3	234.9 kB	786.0 kB	[list of files]
sh4 (unofficial port)	1.1.2+dfsg-9+b2	262.5 kB	998.0 kB	[list of files]
sparc64 (unofficial port)	1.1.2+dfsg-9+b2	214.9 kB	7,288.0 kB	[list of files]
x32 (unofficial port)	1.1.2+dfsg-9+b2	237.3 kB	735.0 kB	[list of files]