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[ Källkod: ea-utils  ]

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

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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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Hämtningar för alla tillgängliga arkitekturer
Arkitektur Version Paketstorlek Installerad storlek Filer
amd64 1.1.2+dfsg-9+b2 230,6 kbyte747,0 kbyte [filförteckning]
arm64 1.1.2+dfsg-9+b2 208,9 kbyte1.003,0 kbyte [filförteckning]
armel 1.1.2+dfsg-9+b2 208,8 kbyte996,0 kbyte [filförteckning]
armhf 1.1.2+dfsg-9+b2 205,7 kbyte740,0 kbyte [filförteckning]
i386 1.1.2+dfsg-9+b2 242,5 kbyte760,0 kbyte [filförteckning]
mips64el 1.1.2+dfsg-9+b2 229,8 kbyte1.094,0 kbyte [filförteckning]
mipsel 1.1.2+dfsg-9+b2 233,5 kbyte1.084,0 kbyte [filförteckning]
ppc64el 1.1.2+dfsg-9+b2 241,5 kbyte1.323,0 kbyte [filförteckning]
s390x 1.1.2+dfsg-9+b2 212,0 kbyte747,0 kbyte [filförteckning]