Man pages for ABarray
Microarray QA and statistical data analysis for Applied Biosystems Genome Survey Microrarray (AB1700) gene expression data.
| ABarray | Utility to perform QA, data transformation and statistical... |
| ABarrayGUI | GUI for ABarray to perform QA, data transformation and... |
| calcsn | Calculate SN summary for each group |
| concord | Calculate signal detection concordance |
| cvv | CV calculation |
| cvvPlot | Plot CV value |
| doANOVA | Perform one way or two way ANOVA |
| doLPE | Perform LPE analysis |
| doPlotEset | Produce a number of QA plot plus t and ANOVA test |
| doPlotFCT | Calculate fold change and t test, the plot |
| doVennDiagram | Create Venn Diagram |
| drawVennDiagram | Draw Venn Diagram |
| getMemberEset | Produce a sub ExpressionSet given a group and its members |
| getPantherMap | Create pie chart for probes involved in Panther Pathway |
| hclusterPlot | heatmap generation |
| icpPlot | icp plot function |
| imputeFlag | Perform imputation for missing values (FLAG > 5000) |
| lpe.fdr.BH | Perform FDR on LPE results |
| mamaplot | MA plot function |
| matrixPlot | heatmap for matrix |
| mvaPair2 | plot MA for each pair of columns |
| panel.cor | Create correlation panel |
| panel.scatter | Creat scatter plot |
| qnNormalize | Perform quantile normalization |
| rgcolorsfunc | generate color map |
| savejpg | save device to jpg image file |
| scaleColorBar | Create scale for heatmap |
| snSummary | Create summary information for S/N ratio |
