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

[ Fonte: 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.

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Download de ea-utils

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Arquitetura	Tamanho do pacote	Tamanho instalado	Arquivos
amd64	219.8 kB	724.0 kB	[lista de arquivos]
arm64	153.1 kB	524.0 kB	[lista de arquivos]
armhf	150.1 kB	408.0 kB	[lista de arquivos]
i386	228.1 kB	736.0 kB	[lista de arquivos]