Пакет: qiime (2024.5.0-1)

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Начална страница [qiime2.org]

Подобни пакети:

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.

Етикети: Role: Program

Други пакети, свързани с qiime

зависимости

препоръчани

предложени

enhances

dep: python3

interactive high-level object-oriented language (default python3 version)
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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