[PATCH] gnu: Add r-alpine.

+++ b/gnu/packages/bioconductor.scm

+(define-public r-alpine

+  (package

+    (name "r-alpine")

+    (version "1.22.0")

+    (source (origin

+              (method url-fetch)

+              (uri (bioconductor-uri "alpine" version))

+              (sha256

+               (base32

+                "1nl1hxwakh5m9rqm3ksn2jzknsj9xnwl51bmc30knknm4q35wdv9"))))

+    (properties `((upstream-name . "alpine")))

+    (build-system r-build-system)

+    (propagated-inputs

+     (list r-biostrings

+           r-genomeinfodb

+           r-genomicalignments

+           r-genomicfeatures

+           r-genomicranges

+           r-graph

+           r-iranges

+           r-rbgl

+           r-rsamtools

+           r-s4vectors

+           r-speedglm

+           r-stringr

+           r-summarizedexperiment))

+    (native-inputs (list r-knitr))

+    (home-page "https://bioconductor.org/packages/alpine")

+    (synopsis "Modeling and correcting fragment sequence bias")

+    (description

+     "The package @code{alpine} helps to model bias parameters and then using

+those parameters to estimate RNA-seq transcript abundance.  @code{Alpine} is a

+package for estimating and visualizing many forms of sample-specific biases that

+can arise in RNA-seq, including fragment length distribution, positional bias on

+the transcript, read start bias (random hexamer priming), and fragment GC-content

+(amplification).  It also offers bias-corrected estimates of transcript abundance

+in @dfn{FPKM}(Fragments Per Kilobase of transcript per Million mapped reads).  It

+is currently designed for un-stranded paired-end RNA-seq data.")

+    (license license:gpl2+)))

+