SANTA

DOI: 10.18129/B9.bioc.SANTA    

This package is for version 3.14 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see SANTA.

Spatial Analysis of Network Associations

Bioconductor version: Development (3.14)

This package provides methods for measuring the strength of association between a network and a phenotype. It does this by measuring clustering of the phenotype across the network (Knet). Vertices can also be individually ranked by their strength of association with high-weight vertices (Knode).

Author: Alex Cornish [cre, aut]

Maintainer: Alex Cornish <alex.cornish at icr.ac.uk>

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

Installation

To install this package, start R (version "4.1") and enter:

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

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

BiocManager::install("SANTA")

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("SANTA")

 

HTML R Script Introduction to SANTA
PDF   Reference Manual
Text   NEWS

Details

biocViews Clustering, Network, NetworkEnrichment, Software
Version 2.29.0
In Bioconductor since BioC 2.12 (R-3.0) (8 years)
License GPL (>= 2)
Depends R (>= 4.1), igraph
Imports graphics, Matrix, methods, stats
LinkingTo
Suggests RUnit, BiocGenerics, knitr, formatR, org.Sc.sgd.db, BioNet, DLBCL, msm
SystemRequirements
Enhances
URL
BugReports https://github.com/alexjcornish/SANTA
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package SANTA_2.29.0.tar.gz
Windows Binary SANTA_2.29.0.zip
macOS 10.13 (High Sierra) SANTA_2.29.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SANTA
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SANTA
Package Short Url https://bioconductor.org/packages/SANTA/
Package Downloads Report Download Stats

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