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[ Source: tree-puzzle  ]

Package: tree-ppuzzle (5.2-6 and others)

Parallelized reconstruction of phylogenetic trees by maximum likelihood

TREE-PUZZLE (the new name for PUZZLE) is an interactive console program that implements a fast tree search algorithm, quartet puzzling, that allows analysis of large data sets and automatically assigns estimations of support to each internal branch. TREE-PUZZLE also computes pairwise maximum likelihood distances as well as branch lengths for user specified trees. Branch lengths can also be calculated under the clock-assumption. In addition, TREE-PUZZLE offers a novel method, likelihood mapping, to investigate the support of a hypothesized internal branch without computing an overall tree and to visualize the phylogenetic content of a sequence alignment.

This is the parallelized version of tree-puzzle.

Tags: Field: Biology, Bioinformatics, Implemented in: C, User Interface: Command Line, Role: Program, Scope: Utility, Purpose: Analysing, Comparing, Supports Format: Plain Text

Other Packages Related to tree-ppuzzle

  • depends
  • recommends
  • suggests
  • dep: lam-runtime [armel, avr32, hppa, m68k, mips, mipsel, s390]
    LAM runtime environment for executing parallel programs
  • dep: libc0.1 (>= 2.7) [kfreebsd-amd64, kfreebsd-i386]
    GNU C Library: Shared libraries
    also a virtual package provided by libc0.1-udeb
  • dep: libc6 (>= 2.4) [armel, mips, mipsel, s390]
    GNU C Library: Shared libraries
    also a virtual package provided by libc6-udeb
    dep: libc6 (>= 2.5) [avr32, hppa]
    dep: libc6 (>= 2.5-5) [m68k]
    dep: libc6 (>= 2.7) [amd64, i386, powerpc, sparc]
  • dep: libc6.1 (>= 2.7) [alpha, ia64]
    GNU C Library: Shared libraries
    also a virtual package provided by libc6.1-udeb
  • dep: liblam4 [armel, avr32, hppa, m68k, mips, mipsel, s390]
    Shared libraries used by LAM parallel programs
  • dep: libopenmpi1.3 [not armel, avr32, hppa, m68k, mips, mipsel, s390]
    high performance message passing library -- shared library
  • dep: libsprng2
    The SPRNG Scalable Parallel RNG library -- library package
  • dep: openmpi-bin [not armel, avr32, hppa, m68k, mips, mipsel, s390]
    high performance message passing library -- binaries
  • rec: tree-puzzle-doc
    Reconstruction of phylogenetic trees by maximum likelihood
  • sug: phylip
    package of programs for inferring phylogenies
  • sug: treetool
    Package not available

Download tree-ppuzzle

Download for all available architectures
Architecture Version Package Size Installed Size Files
alpha 5.2-6 190.8 kB484 kB [list of files]
amd64 5.2-6 174.1 kB412 kB [list of files]
armel 5.2-5 169.3 kB400 kB [list of files]
avr32 (unofficial port) 5.2-5 161.2 kB332 kB [list of files]
hppa 5.2-5 172.4 kB396 kB [list of files]
i386 5.2-6 154.6 kB384 kB [list of files]
ia64 5.2-6 254.9 kB776 kB [list of files]
kfreebsd-amd64 5.2-6 173.7 kB386 kB [list of files]
kfreebsd-i386 5.2-6 154.9 kB370 kB [list of files]
m68k (unofficial port) 5.2-5 126.9 kB352 kB [list of files]
mips 5.2-5 181.8 kB484 kB [list of files]
mipsel 5.2-5 180.9 kB484 kB [list of files]
powerpc 5.2-6 184.2 kB424 kB [list of files]
s390 5.2-5 157.0 kB372 kB [list of files]
sparc 5.2-6 168.1 kB400 kB [list of files]