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[ 原始碼： spades  ]

套件：spades（4.0.0+dfsg1-1）

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試製（Experimental）套件

警告：這個套件來自於 experimental 發行版。這表示它很有可能表現出不穩定或者出現 bug ，甚至是導致資料損失。請務必在使用之前查閱 changelog 以及其他潛在的文件。

genome assembler for single-cell and isolates data sets

The SPAdes – St. Petersburg genome assembler is intended for both standard isolates and single-cell MDA bacteria assemblies. It works with Illumina or IonTorrent reads and is capable of providing hybrid assemblies using PacBio and Sanger reads. You can also provide additional contigs that will be used as long reads.

This package provides the following additional pipelines: 

 * metaSPAdes – a pipeline for metagenomic data sets
 * plasmidSPAdes – a pipeline for extracting and assembling plasmids
   from WGS data sets
 * metaplasmidSPAdes – a pipeline for extracting and assembling
   plasmids from metagenomic data sets
 * rnaSPAdes – a de novo transcriptome assembler from RNA-Seq data
 * truSPAdes – a module for TruSeq barcode assembly
 * biosyntheticSPAdes – a module for biosynthetic gene cluster
   assembly with paired-end reads

SPAdes provides several stand-alone binaries with relatively simple command-line interface: k-mer counting (spades-kmercounter), assembly graph construction (spades-gbuilder) and long read to graph aligner (spades-gmapper).

標籤: 生物學: 核酸, 領域: 生物學, field::biology:bioinformatics, implemented-in::c++, 實做語言: Python, 使用者介面: interface::commandline, role::program, 範圍: 實用程式, 處理: works-with::biological-sequence, works-with::file

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amd64 7，872。8 kB46，657。0 kB [檔案列表]