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bioassayR

Cross-target analysis of small molecule bioactivity


Bioconductor version: Release (3.18)

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 "4.3") 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

Details

biocViews Bioinformatics, CellBasedAssays, DataImport, ImmunoOncology, Infrastructure, Metabolomics, MicrotitrePlateAssay, Proteomics, Software, Visualization
Version 1.40.0
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
See More
Suggests BiocStyle, RCurl, biomaRt, cellHTS2, knitr, knitcitations, knitrBootstrap, testthat, ggplot2, rmarkdown
Linking To
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Package Archives

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

Source Package bioassayR_1.40.0.tar.gz
Windows Binary bioassayR_1.40.0.zip
macOS Binary (x86_64) bioassayR_1.40.0.tgz
macOS Binary (arm64)
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