oneChannelGUI

This package extends the capabilities of affylmGUI graphical interface. Affymetrix 3' IVT, gene an exon arrays are actually implemented togheter with Illumina, GEO matrix series files and tab delimited files. Next Generation Sequencing secondary analysis for ncRNA quantification is also available.

This package was developed to simplify the use of Bioconductor tools for beginners having limited or no experience in writing R code. This library provides a graphical interface for microarray gene and exon level analysis as well as basic secondary analysis of NGS data for ncRNA quantification.

Author	Raffale A Calogero, Bioinformatics and Genomics Unit, Dept. of Clinical and Biological Sciences Torino (Italy)
Maintainer	Raffaele A Calogero

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("oneChannelGUI")

Documentation

fignew42.pdf	PDF
oneChannelGUI Installation	PDF	R Script
oneChannelGUI Next generation Sequencing	PDF	R Script
oneChannelGUI Overview	PDF	R Script
oneChannelGUI Stand Alone Functions	PDF	R Script
oneChannelGUI What is New	PDF	R Script
Reference Manual

Details

biocViews	HighThroughputSequencing , RNAseq , Microarray , OneChannel , DataImport , QualityControl , Preprocessing , Statistics , DifferentialExpression , MultipleComparisons
Depends	Biobase , limma , affylmGUI , tkWidgets , GOstats , AnnotationDbi , preprocessCore , IRanges , edgeR , Genominator , HuExExonProbesetLocationHg19 , MoExExonProbesetLocation , RaExExonProbesetLocation
Imports
Suggests	annotate , genefilter , maSigPro , pamr , pdmclass , ChIPpeakAnno , chipseq , BSgenome , Rgraphviz , affy , annaffy , affyPLM , multtest , ssize , sizepower , siggenes , RankProd , org.Hs.eg.db , org.Mm.eg.db , org.Rn.eg.db , metaArray , MergeMaid , biomaRt , GenomeGraphs , AffyCompatible , Biostrings , IRanges , rtracklayer
System Requirements
License	The Artistic License, Version 2.0
URL	http://www.bioinformatica.unito.it/oneChannelGUI/
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Package Downloads

Package source	oneChannelGUI_1.14.6.tar.gz
Windows 32-bit binary	oneChannelGUI_1.14.6.zip
Windows 64-bit binary	oneChannelGUI_1.14.6.zip
MacOS X 10.5 (Leopard) binary	oneChannelGUI_1.14.6.tgz
Package Downloads Report	Downloads Stats