eisa

DOI: 10.18129/B9.bioc.eisa    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see eisa.

Expression data analysis via the Iterative Signature Algorithm

Bioconductor version: 3.8

The Iterative Signature Algorithm (ISA) is a biclustering method; it finds correlated blocks (transcription modules) in gene expression (or other tabular) data. The ISA is capable of finding overlapping modules and it is resilient to noise. This package provides a convenient interface to the ISA, using standard BioConductor data structures; and also contains various visualization tools that can be used with other biclustering algorithms.

Author: Gabor Csardi <csardi.gabor at gmail.com>

Maintainer: Gabor Csardi <csardi.gabor at gmail.com>

Installation

To install this package, start R (version "3.5") and enter:

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

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("eisa")

 

PDF	R Script	The Iterative Signature Algorithm for Gene Expression Data
PDF		Reference Manual

Details

biocViews	Classification, GeneExpression, Microarray, Software, Visualization
Version	1.34.0
In Bioconductor since	BioC 2.6 (R-2.11) (9 years)
License	GPL (>= 2)
Depends	isa2, Biobase(>= 2.17.8), AnnotationDbi, methods
Imports	BiocGenerics, Category, genefilter, DBI
LinkingTo
Suggests	igraph (>= 0.6), Matrix, GOstats, GO.db, KEGG.db, biclust, MASS, xtable, ALL, hgu95av2.db, targetscan.Hs.eg.db, org.Hs.eg.db
SystemRequirements
Enhances
URL
Depends On Me	ExpressionView
Imports Me	ExpressionView
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	eisa_1.34.0.tar.gz
Windows Binary	eisa_1.34.0.zip
Mac OS X 10.11 (El Capitan)	eisa_1.34.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/eisa
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/eisa
Package Short Url	http://bioconductor.org/packages/eisa/
Package Downloads Report	Download Stats