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	1.5.2
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(>= 1.3.17), 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(>= 1.3.3), gDRstyle(>= 1.3.3), knitr, purrr, qs, testthat
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	gDRimport_1.5.2.tar.gz
Windows Binary (x86_64)	gDRimport_1.5.2.zip (64-bit only)
macOS Binary (x86_64)	gDRimport_1.5.2.tgz
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/gDRimport
Source Repository (Developer Access)	git clone [email protected]:packages/gDRimport
Bioc Package Browser	https://code.bioconductor.org/browse/gDRimport/
Package Short Url	https://bioconductor.org/packages/gDRimport/
Package Downloads Report	Download Stats