Package: progressivemauve (1.2.0+4713+dfsg-5 and others)

[ Source: progressivemauve  ]

multiple genome alignment algorithms

The mauveAligner and progressiveMauve alignment algorithms have been implemented as command-line programs included with the downloadable Mauve software. When run from the command-line, these programs provide options not yet available in the graphical interface.

Mauve is a system for efficiently constructing multiple genome alignments in the presence of large-scale evolutionary events such as rearrangement and inversion. Multiple genome alignment provides a basis for research into comparative genomics and the study of evolutionary dynamics. Aligning whole genomes is a fundamentally different problem than aligning short sequences.

Mauve has been developed with the idea that a multiple genome aligner should require only modest computational resources. It employs algorithmic techniques that scale well in the amount of sequence being aligned. For example, a pair of Y. pestis genomes can be aligned in under a minute, while a group of 9 divergent Enterobacterial genomes can be aligned in a few hours.

Mauve computes and interactively visualizes genome sequence comparisons. Using FastA or GenBank sequence data, Mauve constructs multiple genome alignments that identify large-scale rearrangement, gene gain, gene loss, indels, and nucleotide substutition.

Mauve is developed at the University of Wisconsin.

Other Packages Related to progressivemauve

• dep: libboost-filesystem1.74.0 (>= 1.74.0+ds1) [x32]

  filesystem operations (portable paths, iteration over directories, etc) in C++

• dep: libboost-filesystem1.83.0 (>= 1.83.0) [not x32]

  filesystem operations (portable paths, iteration over directories, etc) in C++

• dep: libboost-iostreams1.74.0 (>= 1.74.0+ds1) [x32]

  Boost.Iostreams Library

• dep: libboost-iostreams1.83.0 (>= 1.83.0) [not x32]

  Boost.Iostreams Library

• dep: libboost-program-options1.74.0 (>= 1.74.0+ds1) [x32]

  program options library for C++

• dep: libboost-program-options1.83.0 (>= 1.83.0) [not x32]

  program options library for C++

• dep: libboost-system1.83.0 (>= 1.83.0) [sparc64]

  Operating system (e.g. diagnostics support) library

• dep: libc6 (>= 2.34) [not alpha, ia64, sh4]

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

  dep: libc6 (>= 2.37) [sh4]

• dep: libc6.1 (>= 2.34) [alpha]

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

  dep: libc6.1 (>= 2.37) [ia64]

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

  GCC support library

  dep: libgcc-s1 (>= 3.4) [alpha, amd64, mips64el, ppc64, riscv64, sparc64, x32]

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

  dep: libgcc-s1 (>= 4.2) [i386, ia64, sh4]

• dep: libgcc-s2 (>= 4.2.1) [m68k]

  GCC support library

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC support library

• dep: libgenome0 (>= 1.3.11+svn20110227.4616)

  toolkit for developing bioinformatic related software

• dep: libmems1 (>= 1.6.0+4725) [alpha, ia64, ppc64, sparc64, x32]

  library to support DNA string matching and comparative genomics

• dep: libmems1t64 (>= 1.6.0+4725) [not alpha, ia64, ppc64, sparc64, x32]

  library to support DNA string matching and comparative genomics

• dep: libmuscle1 (>= 3.7+4565) [sparc64]

  multiple alignment library for protein sequences

• dep: libstdc++6 (>= 13.1)

  GNU Standard C++ Library v3

• dep: libunwind8 [ia64]

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

• enh: mauve-aligner

  multiple genome alignment

Download progressivemauve

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
alpha (unofficial port)	1.2.0+4713+dfsg-5+b2	892.3 kB	6,441.0 kB	[list of files]
amd64	1.2.0+4713+dfsg-5+b3	850.6 kB	5,393.0 kB	[list of files]
arm64	1.2.0+4713+dfsg-5+b3	791.1 kB	5,774.0 kB	[list of files]
armel	1.2.0+4713+dfsg-5+b3	671.7 kB	3,966.0 kB	[list of files]
armhf	1.2.0+4713+dfsg-5+b3	668.8 kB	3,070.0 kB	[list of files]
hppa (unofficial port)	1.2.0+4713+dfsg-5+b3	939.2 kB	5,325.0 kB	[list of files]
i386	1.2.0+4713+dfsg-5+b3	842.1 kB	5,254.0 kB	[list of files]
ia64 (unofficial port)	1.2.0+4713+dfsg-5+b2	1,091.3 kB	9,489.0 kB	[list of files]
m68k (unofficial port)	1.2.0+4713+dfsg-5+b3	811.2 kB	5,262.0 kB	[list of files]
mips64el	1.2.0+4713+dfsg-5+b3	823.7 kB	6,838.0 kB	[list of files]
ppc64 (unofficial port)	1.2.0+4713+dfsg-5+b2	852.6 kB	7,313.0 kB	[list of files]
ppc64el	1.2.0+4713+dfsg-5+b3	877.5 kB	6,863.0 kB	[list of files]
riscv64	1.2.0+4713+dfsg-5+b3	939.3 kB	4,687.0 kB	[list of files]
s390x	1.2.0+4713+dfsg-5+b3	729.4 kB	5,366.0 kB	[list of files]
sh4 (unofficial port)	1.2.0+4713+dfsg-5+b3	920.5 kB	5,641.0 kB	[list of files]
sparc64 (unofficial port)	1.2.0+4713+dfsg-5+b2	813.5 kB	27,865.0 kB	[list of files]
x32 (unofficial port)	1.2.0+4713+dfsg-5+b2	887.1 kB	5,310.0 kB	[list of files]