Package: parsnp (1.2+dfsg-5)

[ Source: parsnp  ]

rapid core genome multi-alignment

Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can be both draft assemblies and finished genomes, and output includes variant (SNP) calls, core genome phylogeny and multi-alignments. Parsnp leverages contextual information provided by multi-alignments surrounding SNP sites for filtration/cleaning, in addition to existing tools for recombination detection/filtration and phylogenetic reconstruction.

Other Packages Related to parsnp

• dep: fasttree

  phylogenetic trees from alignments of nucleotide or protein sequences

• dep: libc6 (>= 2.27)

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

• dep: libgcc1 (>= 1:3.0)

  GCC támogató programkönyvtár

• dep: libgomp1 (>= 4.9)

  GCC OpenMP (GOMP) support library

• dep: libmuscle1 (>= 3.7+4565)

  multiple alignment library for protein sequences

• dep: libstdc++6 (>= 5.2)

  GNU Standard C++ Library v3

• dep: mummer

  Efficient sequence alignment of full genomes

• dep: phipack

  PHI test and other tests of recombination

• dep: python

  interactive high-level object-oriented language (Python2 version)

• dep: python-numpy

  Numerical Python adds a fast array facility to the Python language

• rec: python-dendropy

  DendroPy Phylogenetic Computing Library (Python 2)

Download parsnp

Download for all available architectures

Architecture	Package Size	Installed Size	Files
i386	518.4 kB	920.0 kB	[list of files]