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gnu: Add r-dada2.
* gnu/packages/bioconductor.scm (r-dada2): New variable.
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@ -16743,6 +16743,43 @@ (define-public r-bsseq
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visualizing bisulfite sequencing data.")
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(license license:artistic2.0)))
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(define-public r-dada2
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(package
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(name "r-dada2")
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(version "1.24.0")
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(source (origin
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(method url-fetch)
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(uri (bioconductor-uri "dada2" version))
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(sha256
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(base32
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"0nvjnmcjh0i660y8s3rh9b3zl163wxdx7qm2n36m6vf0iy987l4x"))))
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(properties `((upstream-name . "dada2")))
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(build-system r-build-system)
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(propagated-inputs
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(list r-biocgenerics
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r-biostrings
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r-ggplot2
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r-iranges
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r-rcpp
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r-rcppparallel
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r-reshape2
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r-shortread
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r-xvector))
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(native-inputs (list r-knitr))
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(home-page "https://benjjneb.github.io/dada2/")
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(synopsis
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"Accurate, high-resolution sample inference from amplicon sequencing data")
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(description
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"The dada2 package infers exact @dfn{amplicon sequence variants} (ASVs)
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from high-throughput amplicon sequencing data, replacing the coarser and less
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accurate OTU clustering approach. The dada2 pipeline takes as input
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demultiplexed fastq files, and outputs the sequence variants and their
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sample-wise abundances after removing substitution and chimera errors.
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Taxonomic classification is available via a native implementation of the RDP
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naive Bayesian classifier, and species-level assignment to 16S rRNA gene
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fragments by exact matching.")
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(license license:lgpl2.0)))
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(define-public r-dmrseq
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(package
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(name "r-dmrseq")
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