To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("diffuStats")

In most cases, you don't need to download the package archive at all.

diffuStats

DOI: 10.18129/B9.bioc.diffuStats    

This is the development version of diffuStats; to use it, please install the devel version of Bioconductor.

Diffusion scores on biological networks

Bioconductor version: Development (3.6)

Label propagation approaches are a widely used procedure in computational biology for giving context to molecular entities using network data. Node labels, which can derive from gene expression, genome-wide association studies, protein domains or metabolomics profiling, are propagated to their neighbours in the network, effectively smoothing the scores through prior annotated knowledge and prioritising novel candidates. The R package diffuStats contains a collection of diffusion kernels and scoring approaches that facilitates their computation and benchmarking.

Author: Sergio Picart-Armada and Alexandre Perera-Lluna

Maintainer: Sergio Picart-Armada <sergi.picart at upc.edu>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("diffuStats")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("diffuStats")

 

PDF R Script Case study: predicting protein function
HTML R Script Quick start
PDF   Reference Manual
Text   NEWS

Details

biocViews GeneExpression, GraphAndNetwork, Network, Software
Version 0.99.12
In Bioconductor since BioC 3.6 (R-3.4)
License GPL-3
Depends R (>= 3.4)
Imports grDevices, stats, methods, Matrix, MASS, expm, igraph, Rcpp, RcppArmadillo, RcppParallel, plyr, Metrics
LinkingTo Rcpp, RcppArmadillo, RcppParallel
Suggests testthat, knitr, rmarkdown, ggplot2, ggsci, igraphdata, BiocStyle
SystemRequirements GNU make
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source diffuStats_0.99.12.tar.gz
Windows Binary diffuStats_0.99.12.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) diffuStats_0.99.12.tgz
Source Repository git clone https://git.bioconductor.org/packages/diffuStats
Package Short Url http://bioconductor.org/packages/diffuStats/
Package Downloads Report Download Stats

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