gDRimport

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

Package for handling the import of dose-response data

Bioconductor version: Development (3.21)

The package is a part of the gDR suite. It helps to prepare raw drug response data for downstream processing. It mainly contains helper functions for importing/loading/validating dose-response data provided in different file formats.

Author: Arkadiusz Gladki [aut, cre] (ORCID: ), Bartosz Czech [aut] (ORCID: ), Marc Hafner [aut] (ORCID: ), Sergiu Mocanu [aut], Dariusz Scigocki [aut], Allison Vuong [aut], Luca Gerosa [aut] (ORCID: ), Janina Smola [aut]

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

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

Installation

To install this package, start R (version "4.5") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("gDRimport")

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("gDRimport")

Converting a gDR-generated MultiAssayExperiment object into a PharmacoSet	HTML	R Script
Converting PharmacoSet Drug Response Data into gDR object	HTML	R Script
gDRimport	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DataImport, Infrastructure, Software
Version	1.5.0
In Bioconductor since	BioC 3.18 (R-4.3) (1 year)
License	Artistic-2.0
Depends	R (>= 4.2)
Imports	assertthat, BumpyMatrix, checkmate, CoreGx, PharmacoGx, data.table, futile.logger, gDRutils(>= 1.1.12), magrittr, methods, MultiAssayExperiment, readxl, rio, S4Vectors, stats, stringi, SummarizedExperiment, tibble, tools, utils, XML, yaml, openxlsx
System Requirements
URL	https://github.com/gdrplatform/gDRimport https://gdrplatform.github.io/gDRimport/
Bug Reports	https://github.com/gdrplatform/gDRimport/issues

Suggests	BiocStyle, gDRtestData(>= 1.1.10), gDRstyle(>= 1.1.5), knitr, purrr, qs, testthat
Linking To
Enhances
Depends On Me	gDR
Imports Me
Suggests Me	gDRcore
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	gDRimport_1.5.0.tar.gz
Windows Binary (x86_64)
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/gDRimport
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/gDRimport
Bioc Package Browser	https://code.bioconductor.org/browse/gDRimport/
Package Short Url	https://bioconductor.org/packages/gDRimport/
Package Downloads Report	Download Stats