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gDRimport

Package for handling the import of dose-response data


Bioconductor version: Release (3.18)

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], Bartosz Czech [aut], Marc Hafner [aut], Sergiu Mocanu [aut], Dariusz Scigocki [aut], Allison Vuong [aut], Luca Gerosa [aut], 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 "4.3") 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

Details

biocViews DataImport, Infrastructure, Software
Version 1.0.0
In Bioconductor since BioC 3.18 (R-4.3) (< 6 months)
License Artistic-2.0
Depends R (>= 4.2)
Imports assertthat, BumpyMatrix, checkmate, CoreGx, PharmacoGx, data.table, futile.logger, gDRutils(>= 0.99.5), magrittr, methods, MultiAssayExperiment, readxl, rio, S4Vectors, stats, stringi, SummarizedExperiment, tibble, tools, utils, XML, yaml, openxlsx
System Requirements
URL
See More
Suggests BiocStyle, gDRtestData(>= 0.99.10), gDRstyle(>= 0.99.11), 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_1.0.0.tar.gz
Windows Binary gDRimport_1.0.0.zip
macOS Binary (x86_64) gDRimport_1.0.0.tgz
macOS Binary (arm64) gDRimport_1.0.0.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/
Package Downloads Report Download Stats