Package: python-cogent (1.9-14)

[ Source: python-cogent  ]

framework for genomic biology

PyCogent is a software library for genomic biology. It is a fully integrated and thoroughly tested framework for:

 * controlling third-party applications,
 * devising workflows; querying databases,
 * conducting novel probabilistic analyses of biological sequence
   evolution, and
 * generating publication quality graphics.

It is distinguished by many unique built-in capabilities (such as true codon alignment) and the frequent addition of entirely new methods for the analysis of genomic data.

Tags: Biology: Proteins, Software Development: Python Development, Libraries, Field: field::biology, field::biology:bioinformatics, Implemented in: implemented-in::python, interface::commandline, Role: Development Library, Program, Purpose: use::analysing, use::comparing

Other Packages Related to python-cogent

• dep: libc6 (>= 2.14) [amd64]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

  dep: libc6 (>= 2.17) [arm64]

  dep: libc6 (>= 2.4) [armhf, i386]

• dep: python

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

  dep: python (<< 2.8)

  dep: python (>= 2.7~)

• dep: python-matplotlib

  Python based plotting system in a style similar to Matlab

• dep: python-numpy (>= 1:1.16.0~rc1)

  Numerical Python adds a fast array facility to the Python language

• dep: python-numpy-abi9

  virtual package provided by python-numpy

• rec: blast2

  transitional dummy package to ncbi-blast+-legacy

• rec: bwa [amd64]

  Burrows-Wheeler Aligner

• rec: cd-hit

  suite of programs designed to quickly group sequences

• rec: clearcut

  extremely efficient phylogenetic tree reconstruction

• rec: dialign

  Segment-based multiple sequence alignment

• rec: muscle

  Multiple alignment program of protein sequences

• sug: cdbfasta

  Constant DataBase indexing and retrieval tools for multi-FASTA files

• sug: clustalw

  global multiple nucleotide or peptide sequence alignment

• sug: fasttree

  phylogenetic trees from alignments of nucleotide or protein sequences

• sug: infernal [amd64, i386]

  inference of RNA secondary structural alignments

• sug: mafft

  Multiple alignment program for amino acid or nucleotide sequences

• sug: mothur

  sequence analysis suite for research on microbiota

• sug: parsinsert

  Parsimonious Insertion of unclassified sequences into phylogenetic trees

• sug: python-cogent-doc

  docs for python-cogent

• sug: raxml [amd64, i386]

  Randomized Axelerated Maximum Likelihood of phylogenetic trees

• sug: rdp-classifier

  extensible sequence classifier for fungal lsu, bacterial and archaeal 16s

• sug: rtax

  Classification of sequence reads of 16S ribosomal RNA gene

Download python-cogent

Download for all available architectures

Architecture	Package Size	Installed Size	Files
amd64	2,424.4 kB	7,794.0 kB	[list of files]
arm64	2,378.8 kB	7,680.0 kB	[list of files]
armhf	2,383.5 kB	7,349.0 kB	[list of files]
i386	2,394.6 kB	7,765.0 kB	[list of files]