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| -rw-r--r-- | gnu/packages/bioconductor.scm | 71 |
1 files changed, 71 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index d9d9274095..74071900a3 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -4723,6 +4723,77 @@ error rates and dispersion - and prior knowledge, e.g. from variation data bases such as COSMIC.") (license license:gpl3))) +(define-public r-degreport + (package + (name "r-degreport") + (version "1.36.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "DEGreport" version)) + (sha256 + (base32 + "15xm1l2qgsyzaw820a1fq5qdzh5pj4dmr1hx6s6b6wm2p02cvvai")) + (snippet + '(delete-file "docs/jquery.sticky-kit.min.js")))) + (properties `((upstream-name . "DEGreport"))) + (build-system r-build-system) + (arguments + (list + #:phases + '(modify-phases %standard-phases + (add-after 'unpack 'process-javascript + (lambda* (#:key inputs #:allow-other-keys) + (invoke "esbuild" + (assoc-ref inputs "js-jquery-sticky-kit") + "--minify" + "--outfile=docs/jquery.sticky-kit.min.js")))))) + (propagated-inputs (list r-biobase + r-biocgenerics + r-broom + r-circlize + r-cluster + r-complexheatmap + r-consensusclusterplus + r-cowplot + r-deseq2 + r-dplyr + r-edger + r-ggdendro + r-ggplot2 + r-ggrepel + r-knitr + r-logging + r-magrittr + r-psych + r-rcolorbrewer + r-reshape + r-rlang + r-s4vectors + r-scales + r-stringr + r-summarizedexperiment + r-tibble + r-tidyr)) + (native-inputs + `(("esbuild" ,esbuild) + ("r-knitr" ,r-knitr) + ("js-jquery-sticky-kit" + ,(origin + (method url-fetch) + (uri "https://raw.githubusercontent.com/leafo/sticky-kit/\ +v1.1.2/jquery.sticky-kit.js") + (sha256 + (base32 + "17c3a1hqc3ybwj7hpw8prazajp2x98aq7nyfn71h6lzjvblq297g")))))) + (home-page "https://lpantano.github.io/DEGreport/") + (synopsis "Report of DEG analysis") + (description + "This is a package for creating na HTML report of differential expression +analyses of count data. It integrates some of the code mentioned in DESeq2 +and @code{edgeR} vignettes, and report a ranked list of genes according to the +fold changes mean and variability for each selected gene.") + (license license:expat))) + (define-public r-delayedarray (package (name "r-delayedarray") |