套件：gubbins（3.3.3-1 以及其他的）

[ 原始碼： 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.

其他與 gubbins 有關的套件

• dep: fasttree [除 amd64, i386]

  phylogenetic trees from alignments of nucleotide or protein sequences

• dep: libc6 (>= 2.27) [riscv64]

  GNU C 函式庫：共用函式庫
  同時作為一個虛擬套件由這些套件填實： libc6-udeb

  dep: libc6 (>= 2.29) [m68k, ppc64]

  dep: libc6 (>= 2.34) [amd64, i386]

• dep: libc6.1 (>= 2.29) [alpha]

  GNU C 函式庫：共用函式庫
  同時作為一個虛擬套件由這些套件填實： libc6.1-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 [amd64, i386]

  better multiprocessing and multithreading in Python

• dep: python3-nose [除 amd64, i386]

  test discovery and running for Python3 unittest

• dep: python3-numpy [amd64, i386]

  Fast array facility to the Python language (Python 3)

• dep: python3-reportlab [除 amd64, i386]

  ReportLab library to create PDF documents using Python3

• dep: python3-scipy [amd64, i386]

  scientific tools for Python 3

• dep: raxml

  Randomized Axelerated Maximum Likelihood of phylogenetic trees

• dep: zlib1g (>= 1:1.1.4)

  壓縮函式庫 - 跑程式時用(runtime)

• rec: fasttree

  phylogenetic trees from alignments of nucleotide or protein sequences

• rec: iqtree

  efficient phylogenetic software by maximum likelihood

• rec: python3-numba

  native machine code compiler for Python 3

• sug: r-base-core

  GNU R core of statistical computation and graphics system

下載 gubbins

下載可用於所有硬體架構的

硬體架構	版本	套件大小	安裝後大小	檔案
alpha （非官方移植版）	2.3.5-1	53。5 kB	201。0 kB	[檔案列表]
amd64	3.3.3-1	89。4 kB	474。0 kB	[檔案列表]
i386	3.3.3-1	90。5 kB	477。0 kB	[檔案列表]
m68k （非官方移植版）	2.3.5-1	46。0 kB	174。0 kB	[檔案列表]
ppc64 （非官方移植版）	2.3.5-1	55。4 kB	312。0 kB	[檔案列表]
riscv64 （非官方移植版）	2.3.5-1	48。1 kB	168。0 kB	[檔案列表]