bioassayR
This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see bioassayR.
Cross-target analysis of small molecule bioactivity
Bioconductor version: 3.7
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 "3.5") 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, Infrastructure, Metabolomics, MicrotitrePlateAssay, Proteomics, Software, Visualization |
Version | 1.18.0 |
In Bioconductor since | BioC 2.13 (R-3.0) (10.5 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 |
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_1.18.0.tar.gz |
Windows Binary | bioassayR_1.18.0.zip |
Mac OS X 10.11 (El Capitan) | bioassayR_1.18.0.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 |
Old Source Packages for BioC 3.7 | Source Archive |