Package: sga (0.10.15-7 and others)

[ Source: sga  ]

de novo genome assembler that uses string graphs

The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence reads.

SGA is a de novo assembler for DNA sequence reads. It is based on Gene Myers' string graph formulation of assembly and uses the FM-index/Burrows-Wheeler transform to efficiently find overlaps between sequence reads.

Other Packages Related to sga

• dep: libbamtools2.4.0 [hppa, ppc64, sparc64]

  Package not available

• dep: libbamtools2.5.2 (>= 2.5.2+dfsg) [ia64]

  dynamic library for manipulating BAM (genome alignment) files

• dep: libbamtools2.5.3 (>= 2.5.3+dfsg) [not hppa, ia64, ppc64, sparc64]

  dynamic library for manipulating BAM (genome alignment) files

• dep: libc6 (>= 2.23) [hppa, ppc64, sparc64]

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

  dep: libc6 (>= 2.38) [not alpha, hppa, ia64, loong64, ppc64, sh4, sparc64]

  dep: libc6 (>= 2.41) [loong64, sh4]

• dep: libc6.1 (>= 2.33) [ia64]

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

  dep: libc6.1 (>= 2.38) [alpha]

• dep: libgcc-s1 (>= 3.0) [amd64, arm64, loong64, ppc64el, x32]

  GCC support library

  dep: libgcc-s1 (>= 3.4) [alpha, riscv64, sh4]

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

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

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

• dep: libgcc-s2 (>= 4.2.1) [m68k]

  GCC support library

• dep: libgcc1 (>= 1:3.0) [ppc64]

  Package not available

  dep: libgcc1 (>= 1:3.4) [sparc64]

• dep: libgcc4 (>= 4.1.1) [hppa]

  Package not available

• dep: libgomp1 (>= 4.9) [hppa, ppc64, sparc64]

  GCC OpenMP (GOMP) support library

  dep: libgomp1 (>= 6) [not hppa, ppc64, sparc64]

• dep: libstdc++6 (>= 11) [ia64]

  GNU Standard C++ Library v3

  dep: libstdc++6 (>= 14) [not hppa, ia64, ppc64, sparc64]

  dep: libstdc++6 (>= 5.2) [hppa, ppc64, sparc64]

• dep: libunwind8 [ia64]

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

• dep: perl [not hppa, ppc64, sparc64]

  Larry Wall's Practical Extraction and Report Language

• dep: python [hppa, ppc64, sparc64]

  Package not available

• dep: python-pysam [hppa, ppc64, sparc64]

  Package not available

• dep: python-ruffus [hppa, ppc64, sparc64]

  Package not available

• dep: python3 [not hppa, ppc64, sparc64]

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

• dep: python3-pysam [not hppa, ppc64, sparc64]

  interface for the SAM/BAM sequence alignment and mapping format (Python 3)

• dep: python3-ruffus [not hppa, ppc64, sparc64]

  Python3 computation pipeline library widely used in bioinformatics

• dep: samtools

  processing sequence alignments in SAM, BAM and CRAM formats

• dep: zlib1g (>= 1:1.1.4) [not armhf, m68k, sh4]

  compression library - runtime

  dep: zlib1g (>= 1:1.2.3.3) [armhf, m68k, sh4]

• rec: abyss

  de novo, parallel, sequence assembler for short reads

• sug: abyss (>= 1.5.2-2)

  de novo, parallel, sequence assembler for short reads

Download sga

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
alpha (unofficial port)	0.10.15-7+b1	757.8 kB	2,690.0 kB	[list of files]
amd64	0.10.15-7+b2	866.4 kB	2,579.0 kB	[list of files]
arm64	0.10.15-7+b2	585.1 kB	1,855.0 kB	[list of files]
armhf	0.10.15-7+b3	583.1 kB	1,278.0 kB	[list of files]
hppa (unofficial port)	0.10.14-2	977.9 kB	2,993.0 kB	[list of files]
i386	0.10.15-7+b3	924.3 kB	2,690.0 kB	[list of files]
ia64 (unofficial port)	0.10.15-7+b1	1,025.2 kB	4,829.0 kB	[list of files]
loong64 (unofficial port)	0.10.15-7+b1	770.8 kB	2,366.0 kB	[list of files]
m68k (unofficial port)	0.10.15-7+b2	800.1 kB	2,414.0 kB	[list of files]
ppc64 (unofficial port)	0.10.14-2	735.4 kB	2,620.0 kB	[list of files]
ppc64el	0.10.15-7+b3	697.9 kB	2,239.0 kB	[list of files]
riscv64	0.10.15-7+b3	667.7 kB	1,447.0 kB	[list of files]
sh4 (unofficial port)	0.10.15-7+b1	942.0 kB	2,239.0 kB	[list of files]
sparc64 (unofficial port)	0.10.14-2	770.0 kB	2,627.0 kB	[list of files]
x32 (unofficial port)	0.10.15-7+b2	865.1 kB	2,426.0 kB	[list of files]