Balík: ea-utils (1.1.2+dfsg-9 a iné) [debports]

[ Zdroj:  ]

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.

Ostatné balíky súvisiace s balíkom ea-utils

• dep: libc6 (>= 2.34)

  knižnica GNU C - zdieľané knižnice
  tiež virtuálny balík poskytovaný balíkom libc6-udeb

• dep: libgcc-s1 (>= 3.4)

  podporná knižnica GCC

• dep: libgsl27 (>= 2.7.1)

  GNU Scientific Library (GSL) - balík knižnice

• dep: libstdc++6 (>= 11)

  štandardná knižnica C++ GNU v3

• dep: r-base-core

  jadro GNU R na štatistické výpočty a grafický systém

• dep: r-cran-formula

  balík GNU R vzorcov rozšírených modelov

• dep: r-cran-getopt

  GNU R package providing command-line parsing functionality

• dep: r-cran-ggplot2

  implementácia Gramatiky grafiky

• dep: r-cran-hmisc

  rozličné funkcie pre GNU R, ktoré napísal Frank Harrell

• dep: r-cran-lattice

  balík GNU R pre grafiku „Trellis“

• dep: r-cran-survival

  balík GNU R na analýzu prežitia

• dep: zlib1g (>= 1:1.2.3.3)

  komprimačná knižnica - dynamická verzia

• rec: med-config (>= 2.1)

  Debian Med general config package

Stiahnuť ea-utils

Stiahnuť pre všetky dostupné architektúry

Architektúra	Verzia	Veľkosť balíka	Nainštalovaná veľkosť	Súbory
riscv64 (neoficiálny port)	1.1.2+dfsg-9+b2	217.4 kB	617.0 kB	[zoznam súborov]