gDRimport

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see gDRimport.

Package for handling the import of dose-response data

Bioconductor version: 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 iD ORCID: 0000-0002-7059-6378 , Bartosz Czech [aut] ORCID iD ORCID: 0000-0002-9908-3007 , Marc Hafner [aut] ORCID iD ORCID: 0000-0003-1337-7598 , Sergiu Mocanu [aut], Dariusz Scigocki [aut], Allison Vuong [aut], Luca Gerosa [aut] ORCID iD ORCID: 0000-0001-6805-9410 , 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")
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 1.6.0

In Bioconductor since BioC 3.18 (R-4.3) (2 years)

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 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_1.6.0.tar.gz

Windows Binary (x86_64) gDRimport_1.6.0.zip (64-bit only)

macOS Binary (x86_64) gDRimport_1.6.0.tgz

macOS Binary (arm64) gDRimport_1.6.0.tgz

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/

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