Balík: gubbins (3.4-1)

[ Zdroj: 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.

Ostatné balíky súvisiace s balíkom gubbins

• dep: libc6 (>= 2.34)

  knižnica GNU C - zdieľané knižnice
  tiež virtuálny balík poskytovaný balíkom libc6-udeb

• dep: python3

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

• dep: python3-biopython

  Python3 library for bioinformatics

• dep: python3-dendropy

  DendroPy Phylogenetic Computing Library (Python 3)

• dep: python3-multiprocess

  better multiprocessing and multithreading in Python

• dep: python3-numpy

  Fast array facility to the Python language (Python 3)

• dep: python3-scipy

  vedecké nástroje pre Python 3

• dep: raxml

  Randomized Axelerated Maximum Likelihood of phylogenetic trees

• dep: zlib1g (>= 1:1.1.4)

  komprimačná knižnica - dynamická verzia

• rec: fasttree

  phylogenetic trees from alignments of nucleotide or protein sequences

• rec: iqtree

  efficient phylogenetic software by maximum likelihood

• sug: r-base-core

  jadro GNU R na štatistické výpočty a grafický systém

Stiahnuť gubbins

Stiahnuť pre všetky dostupné architektúry

Architektúra	Veľkosť balíka	Nainštalovaná veľkosť	Súbory
amd64	92.8 kB	482.0 kB	[zoznam súborov]
i386	93.6 kB	485.0 kB	[zoznam súborov]