| plateEffects {cellHTS2} | R Documentation |
This generic function accesses plate effects stored in slot rowcol.effects and overall.effects
of a cellHTS instance.
plateEffects(object)
object |
Object derived from class cellHTS that has been normalized by a spatial normalization method. See details. |
plateEffects returns a list with two elements: rowcol and overall.
plateEffects[["rowcol"]] corresponds to the contents of slot rowcol.effects of object. This is a 3D array with the same dimensions as Data(object): nr of Features x nr of Samples x nr of Channels of the current cellHTS object.
plateEffects[["overall"]] contains the data stored in slot overall.effects of object. This is a 3D array with dimensions nr Plates x nr Samples x nr Channels of object. Slot overall.effects is only estimated when B score method is used to normalize the data.
Note that these 2 slots accessed by this function were stored after preprocessing the data either using Bscore method or local regression fit (see normalizePlates for details), by setting the option save.model=TRUE.
Ligia Bras ligia@ebi.ac.uk
cellHTS
normalizePlates
Bscore
spatialNormalization