eisa

This package is for version 3.12 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see eisa.

Expression data analysis via the Iterative Signature Algorithm

DOI: 10.18129/B9.bioc.eisa

Bioconductor version: 3.12

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>

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

Installation

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


if (!require("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")

The Iterative Signature Algorithm for Gene Expression Data PDF R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Classification, GeneExpression, Microarray, Software, Visualization

Version 1.42.0

In Bioconductor since BioC 2.6 (R-2.11) (14 years)

License GPL (>= 2)

Depends isa2, Biobase(>= 2.17.8), AnnotationDbi, methods

Imports BiocGenerics, Category, genefilter, DBI

System Requirements

URL

Suggests igraph (>= 0.6), Matrix, GOstats, GO.db, KEGG.db, biclust, MASS, xtable, ALL, hgu95av2.db, targetscan.Hs.eg.db, org.Hs.eg.db

Linking To

Enhances

Depends On Me ExpressionView

Imports Me ExpressionView

Suggests Me

Links To Me

Build Report Build Report

Package Archives

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

Source Package eisa_1.42.0.tar.gz

Windows Binary eisa_1.42.0.zip

macOS 10.13 (High Sierra) eisa_1.42.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/eisa

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/eisa

Bioc Package Browser https://code.bioconductor.org/browse/eisa/

Package Short Url https://bioconductor.org/packages/eisa/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.12 Source Archive