gDR

This is the development version of gDR; for the stable release version, see gDR.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18

Umbrella package for R packages in the gDR suite

Bioconductor version: Development (3.24)

Package is a part of the gDR suite. It reexports functions from other packages in the gDR suite that contain critical processing functions and utilities. The vignette walks through the full processing pipeline for drug response analyses that the gDR suite offers.

Author: Allison Vuong [aut], Bartosz Czech [aut] ORCID: 0000-0002-9908-3007 , Arkadiusz Gladki [cre, aut] ORCID: 0000-0002-7059-6378 , Marc Hafner [aut] ORCID: 0000-0003-1337-7598 , Dariusz Scigocki [aut], Janina Smola [aut] ORCID: 0009-0007-4347-7748 , Sergiu Mocanu [aut]

Maintainer: Arkadiusz Gladki <gladki.arkadiusz at gmail.com>

Citation (from within R, enter citation("gDR")):

Allison Vuong, Bartosz Czech, Arkadiusz Gladki, Marc Hafner, Dariusz Scigocki, Janina Smola, Sergiu Mocanu. gDR: Umbrella package for R packages in the gDR suite. doi:10.18129/B9.bioc.gDR, R package version 1.11.11, https://bioconductor.org/packages/gDR.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("gDR")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("gDR")

Running the drug response processing pipeline	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DataImport, ShinyApps, Software
Version	1.11.11
In Bioconductor since	BioC 3.18 (R-4.3) (3 years)
License	Artistic-2.0
Depends	R (>= 4.2), gDRcore (>= 1.7.1), gDRimport (>= 1.7.1), gDRutils (>= 1.7.1)
Imports	BumpyMatrix, checkmate, data.table, MultiAssayExperiment, qs2, rmarkdown, S4Vectors, stats, SummarizedExperiment, tools, utils, whisker
System Requirements
URL	https://github.com/gdrplatform/gDR https://gdrplatform.github.io/gDR/
Bug Reports	https://github.com/gdrplatform/gDR/issues

Suggests	BiocStyle, futile.logger, gDRstyle (>= 1.7.1), gDRtestData (>= 1.7.1), ggplot2, kableExtra, knitr, markdown, mockery, patchwork, purrr, RColorBrewer, stringr, summarytools, testthat, writexl, yaml
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	gDR_1.11.11.tar.gz
Windows Binary (x86_64)	gDR_1.11.3.zip
macOS Binary (big-sur-x86_64)	gDR_1.11.11.tgz
macOS Binary (sonoma-arm64)	gDR_1.11.11.tgz
Source Repository	git clone https://git.bioconductor.org/packages/gDR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/gDR
Package Short Url	https://bioconductor.org/packages/gDR/
Package Downloads Report	Download Stats