Pakket: r-bioc-dada2 (1.34.0+dfsg-1)

[ Bron: r-bioc-dada2  ]

Experimenteel pakket

Warning: This package is from the experimental distribution. That means it is likely unstable or buggy, and it may even cause data loss. Please be sure to consult the changelog and other possible documentation before using it.

sample inference from amplicon sequencing data

The dada2 package contributes to software workflows to interpret sequencing data from microbiota - the relative abundance of bacterial and/or yeast, typically measured in the gut. It infers exact amplicon sequence variants (ASVs) from high-throughput amplicon sequencing data, replacing the coarser and less accurate OTU clustering approach. The dada2 pipeline takes as input demultiplexed fastq files, and outputs the sequence variants and their sample-wise abundances after removing substitution and chimera errors. Taxonomic classification is available via a native implementation of the RDP naive Bayesian classifier, and species-level assignment to 16S rRNA gene fragments by exact matching.

Andere aan r-bioc-dada2 gerelateerde pakketten

• dep: libc6 (>= 2.38)

  GNU C Bibliotheek: Gedeelde bibliotheken
  Ook een virtueel pakket geboden door: libc6-udeb

• dep: libgcc-s1 (>= 3.0)

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• dep: libstdc++6 (>= 14)

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• dep: libtbb12 (>= 2021.4.0)

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• dep: r-api-4.0

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• dep: r-api-bioc-3.20

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• dep: r-bioc-biocgenerics (>= 0.22.0)

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• dep: r-bioc-biostrings (>= 2.42.1)

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• dep: r-bioc-iranges (>= 2.6.0)

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• dep: r-bioc-shortread (>= 1.32.0)

  GNU R classes and methods for high-throughput short-read sequencing data

• dep: r-bioc-xvector (>= 0.16.0)

  BioConductor representation and manpulation of external sequences

• dep: r-cran-ggplot2 (>= 2.1.0)

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• dep: r-cran-rcpp (>= 0.12.0)

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• sug: r-bioc-biocstyle

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• sug: r-cran-knitr

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• sug: r-cran-rmarkdown

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r-bioc-dada2 downloaden

Pakket downloaden voor alle beschikbare platforms

Platform	Pakketgrootte	Geïnstalleerde grootte	Bestanden
amd64	2.745,5 kB	3.148,0 kB	[overzicht]