Package: gubbins (2.4.1-4)

[ Source: 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.

Other Packages Related to gubbins

• dep: libc6 (>= 2.29)

  GNU Biblioteca C: Bibliotecas compartilhadas
  also a virtual package provided by libc6-udeb

• dep: python3

  linguagem orientada a objetos de alto nível e interativa (versão padrão da python3)

• dep: python3-biopython

  Python3 library for bioinformatics

• dep: python3-dendropy

  DendroPy Phylogenetic Computing Library (Python 3)

• dep: raxml

  Randomized Axelerated Maximum Likelihood of phylogenetic trees

• dep: zlib1g (>= 1:1.1.4)

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• rec: fasttree

  phylogenetic trees from alignments of nucleotide or protein sequences

• rec: iqtree

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Architecture	Package Size	Installed Size	Files
amd64	56.9 kB	239.0 kB	[list of files]
i386	58.0 kB	238.0 kB	[list of files]