les

This is the released version of les; for the devel version, see les.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9, 2.8, 2.7

Identifying Differential Effects in Tiling Microarray Data

Bioconductor version: Release (3.23)

The 'les' package estimates Loci of Enhanced Significance (LES) in tiling microarray data. These are regions of regulation such as found in differential transcription, CHiP-chip, or DNA modification analysis. The package provides a universal framework suitable for identifying differential effects in tiling microarray data sets, and is independent of the underlying statistics at the level of single probes.

Author: Julian Gehring, Clemens Kreutz, Jens Timmer

Maintainer: Julian Gehring <jg-bioc at gmx.com>

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

Julian Gehring, Clemens Kreutz, Jens Timmer. les: Identifying Differential Effects in Tiling Microarray Data. doi:10.18129/B9.bioc.les, R package version 1.62.0, https://bioconductor.org/packages/les.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

BiocManager::install("les")

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("les")

Introduction to the les package: Identifying Differential Effects in Tiling Microarray Data with the Loci of Enhanced Significance Framework	PDF	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	ChIPchip, DNAMethylation, DifferentialExpression, Microarray, Software, Transcription
Version	1.62.0
In Bioconductor since	BioC 2.7 (R-2.12) (16 years)
License	GPL-3
Depends	R (>= 2.13.2), methods, graphics, fdrtool
Imports	boot, gplots, RColorBrewer
System Requirements
URL

Suggests	Biobase, limma
Linking To
Enhances	parallel
Depends On Me
Imports Me	GSRI
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	les_1.62.0.tar.gz
Windows Binary (x86_64)	les_1.62.0.zip
macOS Binary (big-sur-x86_64)	les_1.62.0.tgz
macOS Binary (sonoma-arm64)	les_1.62.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/les
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/les
Package Short Url	https://bioconductor.org/packages/les/
Package Downloads Report	Download Stats