bioassayR

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13

Cross-target analysis of small molecule bioactivity

Bioconductor version: Development (3.24)

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: Thomas Girke <tgirke at citrus.ucr.edu>

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

Tyler Backman, Ronly Schlenk, Thomas Girke. bioassayR: Cross-target analysis of small molecule bioactivity. doi:10.18129/B9.bioc.bioassayR, R package version 1.51.0, https://bioconductor.org/packages/bioassayR.

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("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	1.51.0
In Bioconductor since	BioC 2.13 (R-3.0) (13 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, knitr, knitcitations, knitrBootstrap, testthat, ggplot2, rmarkdown
Linking To
Enhances
Depends On Me
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	bioassayR_1.51.0.tar.gz
Windows Binary (x86_64)	bioassayR_1.51.0.zip
macOS Binary (big-sur-x86_64)	bioassayR_1.51.0.tgz
macOS Binary (sonoma-arm64)
Source Repository	git clone https://git.bioconductor.org/packages/bioassayR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/bioassayR
Package Short Url	https://bioconductor.org/packages/bioassayR/
Package Downloads Report	Download Stats