bioassayR

DOI: 10.18129/B9.bioc.bioassayR    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see bioassayR.

Cross-target analysis of small molecule bioactivity

Bioconductor version: 3.9

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>

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

Installation

To install this package, start R (version "3.6") 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 1.22.0
In Bioconductor since BioC 2.13 (R-3.0) (6 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
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_1.22.0.tar.gz
Windows Binary bioassayR_1.22.0.zip
Mac OS X 10.11 (El Capitan) bioassayR_1.22.0.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 https://bioconductor.org/packages/bioassayR/
Package Downloads Report Download Stats

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