synergyfinder

DOI: 10.18129/B9.bioc.synergyfinder    

This is the development version of synergyfinder; for the stable release version, see synergyfinder.

Calculate and Visualize Synergy Scores for Drug Combinations

Bioconductor version: Development (3.11)

Efficient implementations for all the popular synergy scoring models for drug combinations, including HSA, Loewe, Bliss and ZIP and visualization of the synergy scores as either a two-dimensional or a three-dimensional interaction surface over the dose matrix.

Author: Liye He <liye.he at helsinki.fi>, Jing Tang <jing.tang at helsinki.fi>, Shuyu Zheng <shuyu.zheng at helsinki.fi>

Maintainer: Shuyu Zheng <shuyu.zheng at helsinki.fi>

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

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("synergyfinder")

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("synergyfinder")

 

PDF R Script synergyfinder
PDF   Reference Manual
Text   NEWS

Details

biocViews Software, StatisticalMethod
Version 2.1.2
In Bioconductor since BioC 3.4 (R-3.3) (3 years)
License Mozilla Public License 2.0
Depends R (>= 3.6.0)
Imports drc (>= 2.5-12), reshape2 (>= 1.4.1), SpatialExtremes (>= 2.0-2), ggplot2 (>= 2.1.0), grid (>= 3.2.4), lattice (>= 0.20-33), nleqslv (>= 3.0), stats (>= 3.3.0), graphics (>= 3.3.0), grDevices (>= 3.3.0)
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Build Report  

Package Archives

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

Source Package synergyfinder_2.1.2.tar.gz
Windows Binary synergyfinder_2.1.2.zip
Mac OS X 10.11 (El Capitan) synergyfinder_2.1.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/synergyfinder
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/synergyfinder
Package Short Url https://bioconductor.org/packages/synergyfinder/
Package Downloads Report Download Stats

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