| boxplot | Boxplots for cDNA microarray spot statistics |
| bracketMethods | Subsetting methods for microarray objects |
| cbind | Combine marrayRaw, marrayNorm or marrayInfo Objects |
| checkTargetInfo | Verifying the order between intensities matrix and target... |
| coerce-methods | Coerce an object to belong to a given microarray class |
| dim | Retrieve the Dimensions of an marrayRaw, marrayNorm or... |
| findID | Find ID when given an accession number |
| htmlPage | Display gene list as a HTML page |
| image | Color image for cDNA microarray spot statistics |
| ma2D | Stratified bivariate robust local regression |
| maBoxplot | Boxplots for cDNA microarray spot statistics |
| maColorBar | Calibration bar for color images |
| maCompCoord | Generate grid and spot matrix coordinates |
| maCompInd | Generate spot indices |
| maCompLayout | Generate a marrayLayout object |
| maCompNormA | Weights for composite normalization |
| maCompPlate | Generate plate IDs |
| maCoord2Ind | Convert grid and spot matrix coordinates to spot indices |
| maDefaultPar | Default graphical parameters for microarray objects |
| maDotsDefaults | Replace graphical default parameters by user supplied... |
| maDotsMatch | Replace default arguments of a function by user supplied... |
| maGenControls | Generating a vector recording the control status of the... |
| maGeneTable | Table of spot coordinates and gene names |
| maImage | Color image for cDNA microarray spot statistics |
| maImage.func | Color image for cDNA microarray spot statistics |
| maInd2Coord | Convert spot indices to grid and spot matrix coordinates |
| maLegendLines | Add a legend to a plot |
| maLoess | Stratified univariate robust local regression |
| maLoessLines | Add smoothed fits to a plot |
| maMAD | Stratified MAD calculation |
| maMed | Stratified median calculation |
| maNA | Basic Statistical Functions for Handling Missing Values |
| maNorm | Simple location and scale normalization function |
| maNorm2D | 2D spatial location normalization function |
| maNormLoess | Intensity dependent location normalization function |
| maNormMAD | MAD scale normalization function |
| maNormMain | Main function for location and scale normalization of cDNA... |
| maNormMed | Median location normalization function |
| maNormScale | Simple scale normalization function |
| maNum2Logic | Convert a numeric vector of indices to a logical vector |
| maPalette | Microarray color palette |
| mapGeneInfo | Creating URL strings for external database links |
| maPlot | Scatter-plots for cDNA microarray spot statistics |
| maPlot.func | Scatter-plots with fitted curves and text |
| marrayInfo-class | Class "marrayInfo", description of target samples or spotted... |
| marray-internal | Internal marray functions |
| marrayLayout-class | Class "marrayLayout", classes and methods for layout... |
| marrayNorm-class | Class "marrayNorm", classes and methods for... |
| marrayRaw-class | Class "marrayRaw", classes and methods for pre-normalization... |
| maSelectGnames | Select genes according to the values of a few different... |
| maText | Highlight points on a plot |
| maTop | Identify extreme values |
| maTwoSamples | Changing signs for two sample analysis |
| opVersionID | Determine the operon oligo set ID |
| plotMA | Scatter-plots for cDNA microarray spot statistics |
| print-methods | Printing summary methods for microarray objects |
| read.Galfile | Reading GenePix Gal file |
| read.marrayInfo | Create objects of class marrayInfo |
| read.marrayLayout | Create objects of class marrayLayout |
| read.marrayRaw | Create objects of class "marrayRaw" |
| rm.na | Remove missing values |
| showLargeObject | Show Large Data Object - class |
| stat.confband.text | Rank genes according to the value of a statistic. |
| stat.gnames | Sort Genes According to the Value of a Statistic |
| swirl | Gene expression data from Swirl zebrafish cDNA microarray... |
| write.list | Data Output |
| write.marray | Data Output |
| write.xls | Data Output |
