bioassayR

DOI: 10.18129/B9.bioc.bioassayR    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see bioassayR.

Cross-target analysis of small molecule bioactivity

Bioconductor version: 3.8

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: Tyler Backman <tbackman at lbl.gov>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("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")

 

HTML	R Script	Introduction and Examples
PDF		Reference Manual
Text		NEWS

Details

biocViews	Bioinformatics, CellBasedAssays, DataImport, ImmunoOncology, Infrastructure, Metabolomics, MicrotitrePlateAssay, Proteomics, Software, Visualization
Version	1.20.1
In Bioconductor since	BioC 2.13 (R-3.0) (5.5 years)
License	Artistic-2.0
Depends	R (>= 3.1.0), DBI (>= 0.3.1), RSQLite (>= 1.0.0), methods, Matrix, rjson, BiocGenerics(>= 0.13.8)
Imports	XML, ChemmineR
LinkingTo
Suggests	BiocStyle, RCurl, biomaRt, cellHTS2, knitr, knitcitations, knitrBootstrap, testthat, ggplot2, rmarkdown
SystemRequirements
Enhances
URL	https://github.com/TylerBackman/bioassayR
BugReports	https://github.com/TylerBackman/bioassayR/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	bioassayR_1.20.1.tar.gz
Windows Binary	bioassayR_1.20.1.zip
Mac OS X 10.11 (El Capitan)	bioassayR_1.20.1.tgz
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	http://bioconductor.org/packages/bioassayR/
Package Downloads Report	Download Stats