Package: physamp (1.1.0-5)

[ Source: physamp  ]

sample sequence alignment corresponding to phylogeny

The PhySamp package currently contains two programs: bppphysamp, which samples sequences according to their similarity, and bppalnoptim, which samples a sequence alignment by removing sequences in order to maximize the number of sites suitable for a given analysis. The bppalnoptim program has three running modes:

 * Interactive: the user will be iteratively proposed a set of choices
   for sequence removal, with their corresponding site gains. The
   procedure stops when the user does not want to remove more sequences,
   and the resulting filtered alignment is written.
 * Automatic: the user enters an a priori criterion for stopping
   the filtering procedure (for instance a minimum number of
   sequences to keep).
 * Diagnostic: this mode allows one to plot the trade-off curve, by
   showing the site gain as a function of the number of removed
   sequences.

Other Packages Related to physamp

• dep: libbpp-core4t64 (>= 2.4.1)

  Bio++ Core library

• dep: libbpp-phyl12t64 (>= 2.4.1)

  Bio++ Phylogenetic library

• dep: libbpp-seq12t64 (>= 2.4.1)

  Bio++ Sequence library

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

  GNU C könyvtár: megosztott könyvtárak
  also a virtual package provided by libc6-udeb

  dep: libc6 (>= 2.37) [sh4]

• dep: libc6.1 (>= 2.34) [alpha]

  GNU C könyvtár: megosztott könyvtárak
  also a virtual package provided by libc6.1-udeb

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

• dep: libgcc-s1 (>= 3.0) [amd64, arm64, i386, mips64el, ppc64, ppc64el, s390x, x32]

  GCC támogató programkönyvtár

  dep: libgcc-s1 (>= 3.4) [alpha, riscv64, sh4, sparc64]

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

• dep: libgcc-s2 (>= 4.2.1) [m68k]

  GCC támogató programkönyvtár

• dep: libgcc-s4 (>= 4.1.1) [hppa]

  GCC támogató programkönyvtár

• dep: libstdc++6 (>= 13.1)

  GNU Standard C++ Library v3

• dep: libunwind8 [ia64]

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

Download physamp

Download for all available architectures

Architecture	Package Size	Installed Size	Files
alpha (unofficial port)	181.2 kB	1,893.0 kB	[list of files]
amd64	182.3 kB	1,774.0 kB	[list of files]
arm64	175.9 kB	1,826.0 kB	[list of files]
armel	169.6 kB	1,724.0 kB	[list of files]
armhf	170.5 kB	1,660.0 kB	[list of files]
hppa (unofficial port)	186.0 kB	1,807.0 kB	[list of files]
i386	185.3 kB	1,768.0 kB	[list of files]
ia64 (unofficial port)	193.3 kB	1,996.0 kB	[list of files]
m68k (unofficial port)	178.1 kB	1,752.0 kB	[list of files]
mips64el	177.9 kB	1,912.0 kB	[list of files]
ppc64 (unofficial port)	187.3 kB	1,954.0 kB	[list of files]
ppc64el	186.1 kB	1,890.0 kB	[list of files]
riscv64	182.1 kB	1,714.0 kB	[list of files]
s390x	181.0 kB	1,790.0 kB	[list of files]
sh4 (unofficial port)	188.5 kB	1,826.0 kB	[list of files]
sparc64 (unofficial port)	170.3 kB	3,497.0 kB	[list of files]
x32 (unofficial port)	180.4 kB	1,740.0 kB	[list of files]