Paketti: ea-utils (1.1.2+dfsg-5)

Links for ea-utils

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Imuroi lähdekoodipaketti ea-utils:

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External Resources:

Kotisivu [expressionanalysis.github.io]

Samankaltaisia paketteja:

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.

Muut pakettiin ea-utils liittyvät paketit

depends

recommends

suggests

enhances

dep: libc6 (>= 2.15) [armhf]

GNU-C-kirjasto: jaetut kirjastot
myös näennäispaketti, jonka toteuttaa libc6-udeb

dep: libc6 (>= 2.17) [arm64]

dep: libc6 (>= 2.27) [amd64, i386]
dep: libgcc1 (>= 1:3.0) [amd64, arm64]

GCC:n apukirjasto

dep: libgcc1 (>= 1:3.5) [armhf]

dep: libgcc1 (>= 1:4.2) [i386]
dep: libgsl23

GNU Scientific Library (GSL) -- library package
dep: libgslcblas0

GNU Scientific Library (GSL) -- blas library package
dep: libstdc++6 (>= 5.2)

GNU standardi C++ -kirjasto, versio 3
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)

pakkauskirjaston ajonaikaistiedostot

rec: med-config (>= 2.1)

Debian Med general config package

Imuroi ea-utils

Imurointi kaikille saataville arkkitehtuureille
Arkkitehtuuri	Paketin koko	Koko asennettuna	Tiedostot
amd64	219.8 kt	724.0 kt	[tiedostoluettelo]
arm64	153.1 kt	524.0 kt	[tiedostoluettelo]
armhf	150.1 kt	408.0 kt	[tiedostoluettelo]
i386	228.1 kt	736.0 kt	[tiedostoluettelo]