gDRcore

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

All versions

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

Processing functions and interface to process and analyze drug dose-response data

Bioconductor version: Development (3.24)

This package contains core functions to process and analyze drug response data. The package provides tools for normalizing, averaging, and calculation of gDR metrics data. All core functions are wrapped into the pipeline function allowing analyzing the data in a straightforward way.

Author: 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 , Pawel Piatkowski [aut], Natalia Potocka [aut], Dariusz Scigocki [aut], Janina Smola [aut] ORCID: 0009-0007-4347-7748 , Sergiu Mocanu [aut], Marcin Kamianowski [aut], Allison Vuong [aut]

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

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

Bartosz Czech, Arkadiusz Gladki, Marc Hafner, Pawel Piatkowski, Natalia Potocka, Dariusz Scigocki, Janina Smola, Sergiu Mocanu, Marcin Kamianowski, Allison Vuong. gDRcore: Processing functions and interface to process and analyze drug dose-response data. doi:10.18129/B9.bioc.gDRcore, R package version 1.11.18, https://bioconductor.org/packages/gDRcore.

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("gDRcore")

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("gDRcore")

Custom fitting with apply_fit()	HTML	R Script
gDRcore	HTML	R Script
gDRcore	HTML	R Script
gDRcore	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	ShinyApps, Software
Version	1.11.18
In Bioconductor since	BioC 3.18 (R-4.3) (3 years)
License	Artistic-2.0
Depends	R (>= 4.2)
Imports	BumpyMatrix, BiocParallel, checkmate, drc, futile.logger, gDRutils (>= 1.11.12), jsonlite, MultiAssayExperiment, purrr, stringr, S4Vectors, SummarizedExperiment, data.table
System Requirements
URL	https://github.com/gdrplatform/gDRcore https://gdrplatform.github.io/gDRcore/
Bug Reports	https://github.com/gdrplatform/gDRcore/issues

Suggests	BiocStyle, gDRstyle (>= 1.7.1), gDRimport (>= 1.7.1), gDRtestData (>= 1.7.1), IRanges, knitr, pkgbuild, qs2, testthat, yaml
Linking To
Enhances
Depends On Me	gDR
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	gDRcore_1.11.18.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)	gDRcore_1.11.18.tgz
macOS Binary (sonoma-arm64)	gDRcore_1.11.5.tgz
Source Repository	git clone https://git.bioconductor.org/packages/gDRcore
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/gDRcore
Package Short Url	https://bioconductor.org/packages/gDRcore/
Package Downloads Report	Download Stats