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@ -3943,3 +3943,40 @@ large RNA-seq experiments.")
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sites, comparing two biological conditions, starting from known alternative
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sites, comparing two biological conditions, starting from known alternative
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sites and alignments obtained from standard RNA-seq experiments.")
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sites and alignments obtained from standard RNA-seq experiments.")
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(license license:gpl3)))
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(license license:gpl3)))
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(define-public r-xbseq
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(package
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(name "r-xbseq")
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(version "1.14.1")
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(source
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(origin
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(method url-fetch)
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(uri (bioconductor-uri "XBSeq" version))
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(sha256
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(base32
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"0na0jiqfy40bzl243gqc2214k4hibv6v4ndiqwq0c5f78cyr6lph"))))
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(properties `((upstream-name . "XBSeq")))
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(build-system r-build-system)
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(propagated-inputs
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`(("r-biobase" ,r-biobase)
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("r-deseq2" ,r-deseq2)
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("r-dplyr" ,r-dplyr)
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("r-ggplot2" ,r-ggplot2)
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("r-locfit" ,r-locfit)
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("r-magrittr" ,r-magrittr)
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("r-matrixstats" ,r-matrixstats)
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("r-pracma" ,r-pracma)
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("r-roar" ,r-roar)))
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(home-page "https://github.com/Liuy12/XBSeq")
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(synopsis "Test for differential expression for RNA-seq data")
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(description
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"XBSeq is a novel algorithm for testing RNA-seq @dfn{differential
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expression} (DE), where a statistical model was established based on the
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assumption that observed signals are the convolution of true expression
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signals and sequencing noises. The mapped reads in non-exonic regions are
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considered as sequencing noises, which follows a Poisson distribution. Given
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measurable observed signal and background noise from RNA-seq data, true
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expression signals, assuming governed by the negative binomial distribution,
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can be delineated and thus the accurate detection of differential expressed
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genes.")
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(license license:gpl3+)))
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