Paket: gubbins (2.3.4-1)

[ Källkod: gubbins  ]

phylogenetic analysis of genome sequences

Gubbins supports rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences.

Gubbins (Genealogies Unbiased By recomBinations In Nucleotide Sequences) is an algorithm that iteratively identifies loci containing elevated densities of base substitutions while concurrently constructing a phylogeny based on the putative point mutations outside of these regions. Simulations demonstrate the algorithm generates highly accurate reconstructions under realistic models of short-term bacterial evolution, and can be run in only a few hours on alignments of hundreds of bacterial genome sequences.

Andra paket besläktade med gubbins

• dep: fasttree

  phylogenetic trees from alignments of nucleotide or protein sequences

• dep: libc6 (>= 2.14) [amd64]

  GNU C-bibliotek: Delade bibliotek
  också ett virtuellt paket som tillhandahålls av libc6-udeb

  dep: libc6 (>= 2.4) [i386]

• dep: python3

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

• dep: python3-biopython

  Python library for bioinformatics (implemented in Python 3)

• dep: python3-dendropy

  DendroPy Phylogenetic Computing Library (Python 3)

• dep: python3-nose

  test discovery and running for Python3 unittest

• dep: python3-reportlab

  ReportLab library to create PDF documents using Python3

• dep: raxml (>= 8)

  Randomized Axelerated Maximum Likelihood of phylogenetic trees

• dep: zlib1g (>= 1:1.1.4)

  Kompressionsbibliotek - körtidspaket

Hämta gubbins

Hämtningar för alla tillgängliga arkitekturer

Arkitektur	Paketstorlek	Installerad storlek	Filer
amd64	47,4 kbyte	187,0 kbyte	[filförteckning]
i386	48,3 kbyte	186,0 kbyte	[filförteckning]