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Paketti: augur (14.0.0-1)

Links for augur

augur

Trisquel-palvelut:

Imuroi lähdekoodipaketti augur:

Ylläpitäjä:

Original Maintainers:

  • Debian Med Packaging Team (Mail Archive)
  • Andreas Tille
  • Nilesh Patra

External Resources:

Samankaltaisia paketteja:

pipeline components for real-time virus analysis

The nextstrain project is an attempt to make flexible informatic pipelines and visualization tools to track ongoing pathogen evolution as sequence data emerges. The nextstrain project derives from nextflu, which was specific to influenza evolution.

nextstrain is comprised of three components: 

  * fauna: database and IO scripts for sequence and serological data
  * augur: informatic pipelines to conduct inferences from raw data
  * auspice: web app to visualize resulting inferences

Muut pakettiin augur liittyvät paketit

  • depends
  • recommends
  • suggests
  • dep: fasttree
    phylogenetic trees from alignments of nucleotide or protein sequences
  • dep: iqtree
    efficient phylogenetic software by maximum likelihood
  • dep: mafft
    Multiple alignment program for amino acid or nucleotide sequences
  • dep: python3
    interactive high-level object-oriented language (default python3 version)
  • dep: python3-bcbio-gff
    Python3 library to read and write Generic Feature Format
  • dep: python3-biopython
    Python3 library for bioinformatics
  • dep: python3-boto3
    Python interface to Amazon's Web Services - Python 3.x
  • dep: python3-cvxopt
    Python3 package for convex optimization
  • dep: python3-dendropy
    DendroPy Phylogenetic Computing Library (Python 3)
  • dep: python3-ipdb
    IPython-based pdb replacement (Python 3 version)
  • dep: python3-jsonschema
    An(other) implementation of JSON Schema (Draft 3 and 4) - Python 3.x
  • dep: python3-matplotlib
    Python based plotting system in a style similar to Matlab (Python 3)
  • dep: python3-networkx
    tool to create, manipulate and study complex networks (Python3)
  • dep: python3-packaging
    core utilities for python3 packages
  • dep: python3-pandas
    data structures for "relational" or "labeled" data
  • dep: python3-schedule
    Job scheduling for humans (Python 3)
  • dep: python3-seaborn
    statistical visualization library for Python3
  • dep: python3-treetime
    inference of time stamped phylogenies and ancestral reconstruction (Python 3)
  • dep: python3-xopen
    Python3 module to open compressed files transparently
  • dep: raxml
    Randomized Axelerated Maximum Likelihood of phylogenetic trees
  • dep: seqmagick
    imagemagick-like frontend to Biopython SeqIO
  • dep: vcftools
    Collection of tools to work with VCF files

Imuroi augur

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