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[ Source: idba  ]

Package: idba (1.1.3-3)

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iterative De Bruijn Graph short read assemblers

IDBA stands for iterative de Bruijn graph assembler. In computational sequence biology, an assembler solves the puzzle coming from large sequencing machines that feature many gigabytes of short reads from a large genome.

This package provides several flavours of the IDBA assembler, as they all share the same source tree but serve different purposes and evolved over time.

IDBA is the basic iterative de Bruijn graph assembler for second-generation sequencing reads. IDBA-UD, an extension of IDBA, is designed to utilize paired-end reads to assemble low-depth regions and use progressive depth on contigs to reduce errors in high-depth regions. It is a generic purpose assembler and especially good for single-cell and metagenomic sequencing data. IDBA-Hybrid is another update version of IDBA-UD, which can make use of a similar reference genome to improve assembly result. IDBA-Tran is an iterative de Bruijn graph assembler for RNA-Seq data.

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Download for all available architectures
Architecture Package Size Installed Size Files
alpha (unofficial port) 385.1 kB2,951.0 kB [list of files]
amd64 371.8 kB2,571.0 kB [list of files]
arm64 333.1 kB2,191.0 kB [list of files]
armel 319.3 kB2,199.0 kB [list of files]
armhf 329.5 kB1,575.0 kB [list of files]
hppa (unofficial port) 413.8 kB2,863.0 kB [list of files]
hurd-i386 419.7 kB2,823.0 kB [list of files]
i386 417.7 kB2,831.0 kB [list of files]
kfreebsd-amd64 371.1 kB2,559.0 kB [list of files]
kfreebsd-i386 419.9 kB2,819.0 kB [list of files]
mips 390.8 kB3,238.0 kB [list of files]
mips64el 387.0 kB3,212.0 kB [list of files]
mipsel 402.8 kB3,242.0 kB [list of files]
ppc64 (unofficial port) 380.2 kB3,227.0 kB [list of files]
ppc64el 381.4 kB3,035.0 kB [list of files]
s390x 332.9 kB2,703.0 kB [list of files]
sparc64 (unofficial port) 309.3 kB2,355.0 kB [list of files]
x32 (unofficial port) 361.4 kB2,319.0 kB [list of files]