oneChannelGUI

A graphical interface designed to facilitate analysis of microarrays and miRNA/RNA-seq data on laptops.

Bioconductor version: 2.10

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 miRNA/mRNA-seq data analysis.

Author: Raffale A Calogero, Bioinformatics and Genomics Unit, Molecular Biotechnology Center, Torino (Italy)

Maintainer: Raffaele A Calogero <raffaele.calogero at unito.it>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("oneChannelGUI")

Documentation

PDF R Script fignew42.pdf
PDF R Script oneChannelGUI Installation
PDF R Script oneChannelGUI microarray exon-level data analysis overview
PDF R Script oneChannelGUI microarray gene-level data analysis overview
PDF R Script oneChannelGUI miRNA and RNA-seq data analysis overview
PDF R Script oneChannelGUI Stand Alone Functions
PDF   Reference Manual
Text   NEWS

Details

biocViews DataImport, DifferentialExpression, GUI, HighThroughputSequencing, Microarray, MultipleComparisons, OneChannel, Preprocessing, QualityControl, RNAseq, Software, Statistics
Depends Biobase, affylmGUI, tkWidgets, IRanges, Rsamtools, Biostrings, siggenes
Imports
Suggests annotate, genefilter, maSigPro, pamr, pdmclass, ChIPpeakAnno, chipseq, BSgenome, Rgraphviz, affy,annaffy, affyPLM, multtest, ssize, sizepower, RankProd, org.Hs.eg.db, org.Mm.eg.db, org.Rn.eg.db, edgeR, metaArray, MergeMaid, biomaRt, GenomeGraphs,AffyCompatible, rtracklayer, Genominator, EDASeq, limma, DESeq, goseq, cummeRbund, hugene10sttranscriptcluster.db, mogene10sttranscriptcluster.db, ragene10sttranscriptcluster.db, GOstats, AnnotationDbi, preprocessCore, baySeq, HuExExonProbesetLocation, MoExExonProbesetLocation, RaExExonProbesetLocation, snow, RmiR, RmiR.Hs.miRNA, BSgenome.Hsapiens.UCSC.hg19, BSgenome.Mmusculus.UCSC.mm9, BSgenome.Rnorvegicus.UCSC.rn4, R.utils
System Requirements
License The Artistic License, Version 2.0
URL http://www.bioinformatica.unito.it/oneChannelGUI/
Depends On Me
Imports Me
Suggests Me
Version 1.22.12
Since Bioconductor 2.0 (R-2.5)

Package Downloads

Package Source oneChannelGUI_1.22.12.tar.gz
Windows Binary oneChannelGUI_1.22.12.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary oneChannelGUI_1.22.12.tgz
Package Downloads Report Download Stats

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