Package: idba-extra (1.1.3-8 and others)

[ Source: idba  ]

iterative De Bruijn Graph short read assemblers (extra tools)

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.

This package ships extra tools for using idba in specific situations.

Other Packages Related to idba-extra

• dep: idba

  iterative De Bruijn Graph short read assemblers

• dep: libc6 (>= 2.34) [not alpha, ia64]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

• dep: libc6.1 (>= 2.29) [alpha]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6.1-udeb

  dep: libc6.1 (>= 2.35) [ia64]

• dep: libgcc-s1 (>= 3.0) [amd64, arm64, mips64el, ppc64, ppc64el, s390x, x32]

  GCC support library

  dep: libgcc-s1 (>= 3.4) [alpha, riscv64, sparc64]

  dep: libgcc-s1 (>= 3.5) [armel, armhf]

  dep: libgcc-s1 (>= 4.2) [ia64]

  dep: libgcc-s1 (>= 7) [i386]

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC support library

• dep: libgomp1 (>= 6)

  GCC OpenMP (GOMP) support library

• dep: libstdc++6 (>= 11) [not riscv64]

  GNU Standard C++ Library v3

  dep: libstdc++6 (>= 13.1) [riscv64]

• dep: libunwind8 [ia64]

  library to determine the call-chain of a program - runtime

• dep: python3

  interactive high-level object-oriented language (default python3 version)

Download idba-extra

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
alpha (unofficial port)	1.1.3-8	397.2 kB	3,279.0 kB	[list of files]
amd64	1.1.3-8	388.3 kB	2,506.0 kB	[list of files]
arm64	1.1.3-8	334.5 kB	2,686.0 kB	[list of files]
armel	1.1.3-8	309.9 kB	2,599.0 kB	[list of files]
armhf	1.1.3-8	318.3 kB	1,959.0 kB	[list of files]
hppa (unofficial port)	1.1.3-8	405.3 kB	2,376.0 kB	[list of files]
i386	1.1.3-8	417.6 kB	2,523.0 kB	[list of files]
ia64 (unofficial port)	1.1.3-8	475.0 kB	4,639.0 kB	[list of files]
mips64el	1.1.3-8	397.7 kB	3,665.0 kB	[list of files]
ppc64 (unofficial port)	1.1.3-8	395.7 kB	3,838.0 kB	[list of files]
ppc64el	1.1.3-8	400.1 kB	3,390.0 kB	[list of files]
riscv64	1.1.3-8+b1	388.3 kB	1,903.0 kB	[list of files]
s390x	1.1.3-8	351.9 kB	2,538.0 kB	[list of files]
sparc64 (unofficial port)	1.1.3-8	334.5 kB	23,737.0 kB	[list of files]
x32 (unofficial port)	1.1.3-8	385.0 kB	2,283.0 kB	[list of files]