Пакет: augur (20.0.0-1)

Ссылки для augur

Ресурсы Debian:

Исходный код augur:

Сопровождающие:

Внешние ресурсы:

Сайт [github.com]

Подобные пакеты:

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

Другие пакеты, относящиеся к augur

зависимости

рекомендации

предложения

enhances

dep: fasttree

phylogenetic trees from alignments of nucleotide or protein sequences
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-isodate

ISO 8601 date/time/duration parser and formatter (Python 3 module)
dep: python3-jsonschema

An(other) implementation of JSON Schema (Draft 3, 4, 6, 7)
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-numpy

Fast array facility to the Python 3 language
dep: python3-packaging

core utilities for python3 packages
dep: python3-pandas

data structures for "relational" or "labeled" data
dep: python3-pyfastx

fast random access to sequences from FASTA/Q file - python3 module
dep: python3-schedule

Job scheduling for humans (Python 3)
dep: python3-scipy

scientific tools for Python 3
dep: python3-seaborn

statistical visualization library for Python3
dep: python3-treetime (>= 0.9.4)

inference of time stamped phylogenies and ancestral reconstruction (Python 3)
dep: python3-xopen (>= 1.7.0-1~)

Python3 module to open compressed files transparently
dep: python3-zstandard

Python bindings for interfacing with Zstandard library
dep: raxml

синтез филогенетических деревьев по методу максимального правдоподобия
dep: seqmagick

imagemagick-like frontend to Biopython SeqIO
dep: vcftools

Collection of tools to work with VCF files

rec: iqtree

efficient phylogenetic software by maximum likelihood

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Архитектура	Размер пакета	В установленном виде	Файлы
all	182,9 Кб	829,0 Кб	[список файлов]