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| -rw-r--r-- | gnu/packages/bioconductor.scm | 55 |
1 files changed, 55 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index b5802642a7..42d1c3efb3 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -14918,6 +14918,61 @@ samples, with or without imputation, dropping of mostly-NA rows, age estimates, etc.") (license license:gpl3))) +(define-public r-tcgabiolinks + (package + (name "r-tcgabiolinks") + (version "2.22.1") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "TCGAbiolinks" version)) + (sha256 + (base32 "0114pwbxg6mdhv94g556krl08ig7nwaafrryxbjha4hvn0xwy36l")))) + (properties `((upstream-name . "TCGAbiolinks"))) + (build-system r-build-system) + (propagated-inputs + (list r-biomart + r-data-table + r-downloader + r-dplyr + r-genomicranges + r-ggplot2 + r-httr + r-iranges + r-jsonlite + r-knitr + r-plyr + r-purrr + r-r-utils + r-readr + r-rvest + r-s4vectors + r-stringr + r-summarizedexperiment + r-tcgabiolinksgui-data + r-tibble + r-tidyr + r-xml + r-xml2)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/BioinformaticsFMRP/TCGAbiolinks") + (synopsis "Integrative analysis with GDC data") + (description + "The aim of TCGAbiolinks is: + +@enumerate +@item facilitate GDC open-access data retrieval; +@item prepare the data using the appropriate pre-processing strategies; +@item provide the means to carry out different standard analyses, and; +@item to easily reproduce earlier research results. +@end enumerate + +In more detail, the package provides multiple methods for analysis (e.g., +differential expression analysis, identifying differentially methylated +regions) and methods for visualization (e.g., survival plots, volcano plots, +starburst plots) in order to easily develop complete analysis pipelines.") + (license license:gpl3+))) + (define-public r-tximeta (package (name "r-tximeta") |