Reference index for {aroma.affymetrix}
You are viewing package members beginning with the letter "P"
| Function/Class | Description |
|---|---|
| ParameterCelFile {aroma.affymetrix} | The ParameterCelFile class |
| ParameterCelSet {aroma.affymetrix} | The ParameterCelSet class |
| ParameterCelSet.extractDataFrame {aroma.affymetrix} | Extract data as a data.frame for a set of arrays |
| ParameterCelSet.extractMatrix {aroma.affymetrix} | Extract data as a matrix for a set of arrays |
| patch.AromaAffymetrix {aroma.affymetrix} | Non-documented objects |
| pdInfo2Cdf {aroma.affymetrix} | Generates an Affymetrix CDF file from a Platform Design (PD) package and a auxillary CEL file for the same chip type |
| plotBoxplotStats.list {aroma.affymetrix} | Plots a (merged or non-merged) list of boxplot.stats() elements |
| plotDensity.AffymetrixCelFile {aroma.affymetrix} | Plots the density of the probe signals on the array |
| plotDensity.AffymetrixCelSet {aroma.affymetrix} | Plots the densities of all samples |
| plotDensity.GenomeInformation {aroma.affymetrix} | Plots the density of SNPs for a given chromosome |
| plotImage.AffymetrixCelFile {aroma.affymetrix} | Displays a spatial plot of a CEL file |
| plotMvsA.AffymetrixCelFile {aroma.affymetrix} | Plots log-ratio versus log-intensity in a scatter plot |
| plotMvsX.AffymetrixCelFile {aroma.affymetrix} | Plots log-ratio versus another variable in a scatter plot |
| ProbeAffinityFile {aroma.affymetrix} | The ProbeAffinityFile class |
| ProbeAffinityFile.getCellIndices {aroma.affymetrix} | Retrieves tree list of cell indices for a set of units |
| ProbeLevelModel {aroma.affymetrix} | The ProbeLevelModel class |
| ProbeLevelModel.findUnitsTodo {aroma.affymetrix} | Identifies non-fitted units |
| ProbeLevelModel.fit {aroma.affymetrix} | Estimates the model parameters |
| ProbeLevelModel.getChipEffectSet {aroma.affymetrix} | Gets the set of chip effects for this model |
| ProbeLevelModel.getProbeAffinityFile {aroma.affymetrix} | Gets the probe affinities for this model |