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KinSwingR

KinSwingR: network-based kinase activity prediction


Bioconductor version: Release (3.18)

KinSwingR integrates phosphosite data derived from mass-spectrometry data and kinase-substrate predictions to predict kinase activity. Several functions allow the user to build PWM models of kinase-subtrates, statistically infer PWM:substrate matches, and integrate these data to infer kinase activity.

Author: Ashley J. Waardenberg [aut, cre]

Maintainer: Ashley J. Waardenberg <a.waardenberg at gmail.com>

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

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("KinSwingR")

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("KinSwingR")
KinSwingR HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Network, Proteomics, SequenceMatching, Software
Version 1.20.0
In Bioconductor since BioC 3.8 (R-3.5) (5.5 years)
License GPL-3
Depends R (>= 3.5)
Imports data.table, BiocParallel, sqldf, stats, grid, grDevices
System Requirements
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Suggests knitr, rmarkdown
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Package Archives

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

Source Package KinSwingR_1.20.0.tar.gz
Windows Binary KinSwingR_1.20.0.zip (64-bit only)
macOS Binary (x86_64) KinSwingR_1.20.0.tgz
macOS Binary (arm64) KinSwingR_1.20.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/KinSwingR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/KinSwingR
Bioc Package Browser https://code.bioconductor.org/browse/KinSwingR/
Package Short Url https://bioconductor.org/packages/KinSwingR/
Package Downloads Report Download Stats