sigsquared

This package is for version 3.20 of Bioconductor; for the stable, up-to-date release version, see sigsquared.

Gene signature generation for functionally validated signaling pathways

Bioconductor version: 3.20

By leveraging statistical properties (log-rank test for survival) of patient cohorts defined by binary thresholds, poor-prognosis patients are identified by the sigsquared package via optimization over a cost function reducing type I and II error.

Author: UnJin Lee

Maintainer: UnJin Lee <unjin at uchicago.edu>

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

Installation

To install this package, start R (version "4.4") and enter:


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

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("sigsquared")

SigSquared PDF R Script

Reference Manual PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Software

Version 1.38.0

In Bioconductor since BioC 3.1 (R-3.2) (10 years)

License GPL version 3

Depends R (>= 3.2.0), methods

Imports Biobase, survival

System Requirements

URL

Suggests RUnit, BiocGenerics

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Package Archives

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

Source Package sigsquared_1.38.0.tar.gz

Windows Binary (x86_64) sigsquared_1.38.0.zip

macOS Binary (x86_64) sigsquared_1.38.0.tgz

macOS Binary (arm64) sigsquared_1.38.0.tgz

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

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

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

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

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