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| oneChannelGUI-package | Set of functions extending the capability of affylmGUI package |
| AboutaffylmGUI | Starting oneChannelGUI package |
| AboutextendedaffylmGUI | Starting oneChannelGUI package |
| addAnnLib | Starting oneChannelGUI package |
| affyPLMHelp | Starting oneChannelGUI package |
| affyPlotMA | Starting oneChannelGUI package |
| AptMidas | Graphical interface to APT midas |
| changeMenu | Starting oneChannelGUI package |
| ComputeContrasts | Starting oneChannelGUI package |
| ComputeLinearModelFit | Starting oneChannelGUI package |
| crosshybFilter | Removing from exon array gene/exon level probe sets characterized by cross hybridization with other transcripts |
| crosshybhuex10stv2na22hg18 | Cross hybriduzation data for exon CORE subset of human exon array 1.0 ST |
| crosshybmoex10stv1na22mm8 | Cross hybriduzation data for exon CORE subset of mouse exon array 1.0 ST |
| crosshybraex10stv1na22rn4 | Cross hybriduzation data for exon CORE subset of rat exon array 1.0 ST |
| dabgFilter | Starting oneChannelGUI package |
| delete.ML | Starting oneChannelGUI package |
| dfMAplot | MA and Volcano plots from data present in a limma derived topTable |
| erankProdAltSpl | Implementation of the Rank Product method for the detection of alternative splicing events |
| erankProdAltSplFilter | Filtering Rank Product results for the detection of alternative splicing events |
| ExportNormalizedExpressionValues | Starting oneChannelGUI package |
| ExportNormalizedExpressionValues1 | Starting oneChannelGUI package |
| extractAffyids | Extracting probe ids associated to a specific Gene Ontology term |
| filteringTable | Filtering a tab delimited file |
| genefilterHelp | Starting oneChannelGUI package |
| geoVSbioc | linking GEO platforms to available BioC annotations libraries |
| GetNormalizationMethod | Starting oneChannelGUI package |
| GOenrichment | Searching for Gene Ontology enriched terms within a set of differentially expressed genes |
| GOstatsHelp | Starting oneChannelGUI package |
| huex10stv2na22hg18 | Annotation data for CORE subset of human exon array 1.0 ST |
| initialize.extAffylmGUI | Starting oneChannelGUI package |
| inspecting.one.splice.index | Plotting on the profiles of splice indexes for a transcript cluster ID |
| inspecting.splice.index | Plotting on a pdf file the profiles of splice indexes |
| intensityFilter | intensity filtering with a mouse click |
| intronicBg | Starting oneChannelGUI package |
| IPAlistFilter | Filtering an expression set using a set of Entrez genes extracted from Ingenuity Pathways analysis (IPA) |
| iqrFilter | Interquantile filtering with a mouse click |
| largedatasetNorm | Starting oneChannelGUI package |
| libraryFilesDir | Starting oneChannelGUI package |
| listFilter | Subsetting an expression set using a list of Affymetrix ids |
| masigpro | The function executes maSigPro analysis |
| masigpro.edesign | The function creates an edesign object needed to run maSigPro |
| masigpro.view | The function allows the visualization of maSigPro results |
| maSigProHelp | Starting oneChannelGUI package |
| midasFilter | Starting oneChannelGUI package |
| ML.edesign | The function creates an data frame containing the parameters useful for class prediction |
| moex10stv1na22mm8 | Annotation data for CORE subset of mouse exon array 1.0 ST |
| myExpresso | Running the affy expresso function with the widget |
| NewLimmaFile | Starting oneChannelGUI package |
| NormalizeNow | Starting oneChannelGUI package |
| ocPlotHist | Gene/Exon level density plots |
| ocPlotPCA | Gene/Exon level density plots |
| oneChannelGUI | Set of functions extending the capability of affylmGUI package |
| oneChannelGUI.start | Starting oneChannelGUI package |
| oneChannelGUIHelp | Starting oneChannelGUI package |
| OpenAFile | Starting oneChannelGUI package |
| OpenAGeoFile | Starting oneChannelGUI package |
| OpenALimmaFile | Starting oneChannelGUI package |
| OpenCDFandTargetsfiles | Starting oneChannelGUI package |
| OpenExonandTargetsfiles | Starting oneChannelGUI package |
| OpenExonFile | Starting oneChannelGUI package |
| OpenExonProbeFile | Starting oneChannelGUI package |
| OpenGeoFile | Starting oneChannelGUI package |
| OpenGeoFiles | Starting oneChannelGUI package |
| OpenLargeFile | Starting oneChannelGUI package |
| OpenLargefiles | This function loads large data set made from tab delimited files |
| OpenLimmaFile | Starting oneChannelGUI package |
| pamrHelp | Starting oneChannelGUI package |
| pdmclassHelp | Starting oneChannelGUI package |
| plierToZero | Setting to 0 low log2 intensity values generated with plier |
| plotGO | Plotting parents of a GO term with few mouse click |
| PlotOptionsv1 | A modified version of the function used in affyPLM library |
| raex10stv1na22rn4 | Annotation data for CORE subset of rat exon array 1.0 ST |
| rankProd | graphical interface to rank product method implemented in RankProd Bioconductor library. |
| RankProdHelp | Starting oneChannelGUI package |
| rawpCheck | Raw p-value distribution from limma analysis by a mouse click |
| recoverUnfiltered | Starting oneChannelGUI package |
| reviqrFilter | Reverse interquantile filtering with a mouse click |
| sample.size.evaluation | The function executes and plots results from ssize and delta fulction from the ssize packahe |
| sample.size.evaluation1 | The function executes functions from the sizepower packahe |
| SaveAsLimmaFile | Starting oneChannelGUI package |
| showDataset | Grabbing info about the available expression set |
| showTopTable | Modification of the function immplemented in affylmGUI to generate a topTable |
| siggenes | The function executes SAM analysis implemented in siggenes bioconductor library |
| siggenesHelp | Starting oneChannelGUI package |
| simFilter | This function allows filtering on the basis of the average splice index mean difference between two groups |
| sizepowerHelp | Starting oneChannelGUI package |
| spliceIndex | This function coverts the exon intenisty data in a slice index |
| ssizeHelp | Starting oneChannelGUI package |
| targetWidget | Widget to create a target file to load .CEL files |
| templA | Generating a template A to be uploaded in Ingenuity Pathways analysis (IPA) |
| trainTest | Creating a training set and a test set by a mouse click |
| VennDiagram | Venn diagrams using two or three lists |
| whichKindOfArray | Starting oneChannelGUI package |