RNAinteract-class       Class "RNAinteract"
RNAinteract-package     Analysis of Pairwise Interaction Screens.
bindscreens             bind RNAinteract objects along screens
computePI               compute pairwise interaction
computePValues          compute p-values
createCellHTSFromFiles
                        create cellHTS2 object from text files
createRNAinteract       create a RNAinteract object
createRNAinteractFromFiles
                        create an RNAinteract object from text files
embedPCA                Computes a PCA for a pairwise interaction
                        matrix.
estimateMainEffect      estimate main effect
getData                 Primary access function for all screen data.
getMain                 get main effects
getReplicateData        Extract replicates measurements from the
                        screen.
getScale                get scale information for a channel.
getScreenNames          get names of screens and channels
grid.doublePerturbation
                        Double Perturbation Plot Grob
grid.sgiHeatmap         A heatmap grob
normalizeMainEffectQuery
                        normalize query main effect
normalizeMainEffectTemplate
                        normalize template main effect
normalizePlateEffect    Normalization of plate effects
plotDoublePerturbation
                        Double Perturbation Plot
plotHeatmap             plots a heatmap for an interaction screen.
reportAnnotation        Specialized report functions
sgi                     Dataset of class 'RNAinteract'
sgisubset               subset of an RNAinteract object.
sgisubsetQueryDesign    Subsetting query genes in a RNAinteract object.
startReport             start and end a RNAinteract report
summarizeScreens        summarize screens
swaptree                Swaps a branch of a hclust object.
