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("bioassayR")):
Installation
To install this package, start R (version "3.6") 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")| Introduction and Examples | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
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) (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/TylerBackman/bioassayR |
| Bug Reports | https://github.com/TylerBackman/bioassayR/issues |
See More
| 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_1.22.0.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 |
| 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 3.9 | Source Archive |