Pakiet: qiime (2024.5.0-1)

[ Pakiet źródłowy: qiime  ]

Quantitative Insights Into Microbial Ecology

Microbes are surrounding us, animals, plants and all their parasites with strong effect on these and the environment these live in. Soil quality comes to mind but also the effect that bacteria have on each other. Humans are influencing the absolute and relative abundance of bacteria by antibiotics, food, fertilizers - you name it - and these changes affect us.

QIIME 2 is a powerful, extensible, and decentralized microbiome analysis package with a focus on data and analysis transparency. QIIME 2 enables researchers to start an analysis with raw DNA sequence data and finish with publication-quality figures and statistical results. Key features:

 * Integrated and automatic tracking of data provenance
 * Semantic type system
 * Plugin system for extending microbiome analysis functionality
 * Support for multiple types of user interfaces (e.g. API, command line,

graphical)

QIIME 2 is a complete redesign and rewrite of the QIIME 1 microbiome analysis pipeline. QIIME 2 will address many of the limitations of QIIME 1, while retaining the features that makes QIIME 1 a powerful and widely-used analysis pipeline.

QIIME 2 currently supports an initial end-to-end microbiome analysis pipeline. New functionality will regularly become available through QIIME 2 plugins. You can view a list of plugins that are currently available on the QIIME 2 plugin availability page. The future plugins page lists plugins that are being developed.

Znaczniki: Rola: Program

Inne pakiety związane z qiime

• dep: python3

  Interaktywny, wysokopoziomowy i obiektowy język programowania (domyślna wersja Python 3)

• dep: python3-bibtexparser

  Python 3 library to parse bibtex files

• dep: python3-dateutil

  powerful extensions to the standard Python 3 datetime module

• dep: python3-decorator

  simplify usage of Python decorators by programmers

• dep: python3-dill

  Serialize all of Python 3 (almost)

• dep: python3-flufl.lock

  NFS-safe file-based lock with timeouts (Python 3)

• dep: python3-lxml

  pythonic binding for the libxml2 and libxslt libraries

• dep: python3-networkx

  tool to create, manipulate and study complex networks (Python3)

• dep: python3-pandas

  data structures for "relational" or "labeled" data

• dep: python3-parsl

  Parallel Scripting Library for Python

• dep: python3-platformdirs

  determining appropriate platform-specific directories (Python 3)

• dep: python3-psutil

  module providing convenience functions for managing processes (Python3)

• dep: python3-pyparsing

  alternative to creating and executing simple grammars - Python 3.x

• dep: python3-setuptools

  Python3 Distutils Enhancements

• dep: python3-tomlkit

  style-preserving TOML library for Python

• dep: python3-tzlocal

  tzinfo object for the local timezone

• dep: python3-yaml

  YAML parser and emitter for Python3

• rec: q2-cutadapt

  QIIME 2 plugin to work with adapters in sequence data

• rec: q2-demux

  QIIME 2 plugin for demultiplexing of sequence reads

• rec: q2-feature-classifier

  QIIME 2 plugin supporting taxonomic classification

• rec: q2-feature-table

  QIIME 2 plugin supporting operations on feature tables

• rec: q2-metadata

  QIIME 2 plugin for working with and visualizing Metadata

• rec: q2-quality-filter

  QIIME2 plugin for PHRED-based filtering and trimming

• rec: q2-types

  QIIME 2 plugin defining types for microbiome analysis

• rec: q2cli

  Click-based command line interface for QIIME 2

• rec: q2templates

  Design template package for QIIME 2 Plugins

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