Reference index for {aroma.affymetrix}
You are viewing package members beginning with the letter "C"
| Function/Class | Description |
|---|---|
| calcRawCnStats {aroma.affymetrix} | Non-documented objects |
| calculateBaseline.ChipEffectSet {aroma.affymetrix} | Estimates the baseline signal chromosome by chromosome |
| calculateParametersGsb.AffymetrixCelSet {aroma.affymetrix} | Computes parameters for adjustment of specific binding |
| calculateResidualSet.FirmaModel {aroma.affymetrix} | Gets the set of residuals corresponding to the PLM |
| ChipEffectFile {aroma.affymetrix} | The ChipEffectFile class |
| ChipEffectFile.fromDataFile {aroma.affymetrix} | Retrive an existing CEL file, or create from CDF template if missing |
| ChipEffectFile.fromDataFile {aroma.affymetrix} | Retrive an existing CEL file, or create from CDF template if missing |
| ChipEffectFile.getAM {aroma.affymetrix} | Gets the log-intensities and log-ratios of chip effects for two arrays |
| ChipEffectFile.getCellIndices {aroma.affymetrix} | Retrieves tree list of cell indices for a set of units |
| ChipEffectFile.getUnitGroupCellMap {aroma.affymetrix} | Gets a (unit, group, cell) index map |
| ChipEffectFile.getXAM {aroma.affymetrix} | Gets the physical position, log-intensities and log-ratios of chip effects for two arrays |
| ChipEffectGroupMerge {aroma.affymetrix} | The ChipEffectGroupMerge class |
| ChipEffectGroupMerge.process {aroma.affymetrix} | Normalizes the data set |
| ChipEffectSet {aroma.affymetrix} | The ChipEffectSet class |
| ChipEffectSet.extractExpressionSet {aroma.affymetrix} | Extracts an in-memory ExpressionSet object |
| ChipEffectSet.getAM {aroma.affymetrix} | Gets the log-intensities and log-ratios of chip effects of the set relative to a reference chip effect file |
| ChipEffectSet.getBaseline {aroma.affymetrix} | Gets the baseline signals across chromosomes |
| ChipEffectSet.getXAM {aroma.affymetrix} | Gets the physical position, log-intensities and log-ratios of chip effects for two arrays |
| ChipEffectTransform {aroma.affymetrix} | The ChipEffectTransform class |
| clearData.AffymetrixCelFile {aroma.affymetrix} | Clears all or a subset of the fields in a CEL file |