diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 88592c4f71..c913232680 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -9931,6 +9931,72 @@ identifier translation via the GDC API.") "This package implements widgets to provide user interfaces.") (license license:artistic2.0))) +(define-public r-trackviewer + (package + (name "r-trackviewer") + (version "1.36.2") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "trackViewer" version)) + (sha256 + (base32 + "1ngfpd308y8i3vgv07cggk2azs64lsyyc9zfi3pz0gapr33ha6a1")) + (snippet + '(delete-file "inst/htmlwidgets/lib/d3/d3.v4.min.js")))) + (properties `((upstream-name . "trackViewer"))) + (build-system r-build-system) + (arguments + (list + #:phases + '(modify-phases %standard-phases + (add-after 'unpack 'process-javascript + (lambda* (#:key inputs #:allow-other-keys) + (with-directory-excursion "inst/htmlwidgets/lib/d3" + (let ((source (assoc-ref inputs "_")) + (target "d3.v4.min.js")) + (format #true "Processing ~a --> ~a~%" + source target) + (invoke "esbuild" source "--minify" + (string-append "--outfile=" target))))))))) + (propagated-inputs (list r-annotationdbi + r-biocgenerics + r-genomeinfodb + r-genomicalignments + r-genomicfeatures + r-genomicranges + r-graph + r-grimport + r-gviz + r-htmlwidgets + r-interactionset + r-iranges + r-plotrix + r-rgraphviz + r-rhdf5 + r-rsamtools + r-rtracklayer + r-s4vectors + r-scales + r-strawr)) + (native-inputs + (list esbuild + r-knitr + (origin + (method url-fetch) + (uri "https://web.archive.org/web/20230428092426id_/\ +https://d3js.org/d3.v4.js") + (sha256 + (base32 + "0y7byf6kcinfz9ac59jxc4v6kppdazmnyqfav0dm4h550fzfqqlg"))))) + (home-page "https://bioconductor.org/packages/trackViewer") + (synopsis "Web interface for interactive multi-omics data analysis") + (description + "TrackViewer offers multi-omics analysis with web based tracks and +lollipops. Visualize mapped reads along with annotation as track layers for +NGS datasets such as ChIP-seq, RNA-seq, miRNA-seq, DNA-seq, SNPs and +methylation data.") + (license license:gpl2+))) + (define-public r-transcriptr (package (name "r-transcriptr")