bioassayR

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see bioassayR.

Cross-target analysis of small molecule bioactivity

Bioconductor version: 3.14

bioassayR is a computational tool that enables simultaneous analysis of thousands of bioassay experiments performed over a diverse set of compounds and biological targets. Unique features include support for large-scale cross-target analyses of both public and custom bioassays, generation of high throughput screening fingerprints (HTSFPs), and an optional preloaded database that provides access to a substantial portion of publicly available bioactivity data.

Author: Tyler Backman, Ronly Schlenk, Thomas Girke

Maintainer: Daniela Cassol <danicassol at gmail.com>

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

Installation

To install this package, start R (version "4.1") and enter:


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

BiocManager::install("bioassayR")

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("bioassayR")

bioassayR Introduction and Examples	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Bioinformatics, CellBasedAssays, DataImport, ImmunoOncology, Infrastructure, Metabolomics, MicrotitrePlateAssay, Proteomics, Software, Visualization
Version	1.32.1
In Bioconductor since	BioC 2.13 (R-3.0) (10.5 years)
License	Artistic-2.0
Depends	R (>= 3.5.0), DBI (>= 0.3.1), RSQLite (>= 1.0.0), methods, Matrix, rjson, BiocGenerics(>= 0.13.8)
Imports	XML, ChemmineR
System Requirements
URL	https://github.com/girke-lab/bioassayR
Bug Reports	https://github.com/girke-lab/bioassayR/issues

Suggests	BiocStyle, RCurl, biomaRt, cellHTS2, knitr, knitcitations, knitrBootstrap, testthat, ggplot2, rmarkdown
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	bioassayR_1.32.1.tar.gz
Windows Binary	bioassayR_1.32.1.zip
macOS 10.13 (High Sierra)	bioassayR_1.32.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/bioassayR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/bioassayR
Bioc Package Browser	https://code.bioconductor.org/browse/bioassayR/
Package Short Url	https://bioconductor.org/packages/bioassayR/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.14	Source Archive