gnu: Add r-dada2.

* gnu/packages/bioconductor.scm (r-dada2): New variable.
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Ricardo Wurmus 2022-10-06 12:38:34 +02:00
parent e351749c44
commit e069c6df5e
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@ -16743,6 +16743,43 @@ (define-public r-bsseq
visualizing bisulfite sequencing data.")
(license license:artistic2.0)))
(define-public r-dada2
(package
(name "r-dada2")
(version "1.24.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "dada2" version))
(sha256
(base32
"0nvjnmcjh0i660y8s3rh9b3zl163wxdx7qm2n36m6vf0iy987l4x"))))
(properties `((upstream-name . "dada2")))
(build-system r-build-system)
(propagated-inputs
(list r-biocgenerics
r-biostrings
r-ggplot2
r-iranges
r-rcpp
r-rcppparallel
r-reshape2
r-shortread
r-xvector))
(native-inputs (list r-knitr))
(home-page "https://benjjneb.github.io/dada2/")
(synopsis
"Accurate, high-resolution sample inference from amplicon sequencing data")
(description
"The dada2 package infers exact @dfn{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.")
(license license:lgpl2.0)))
(define-public r-dmrseq
(package
(name "r-dmrseq")