lmmsde-class: lmmsde class a S4 class that extends lmms class.
Description
lmmsde class inherits from class lmms and extends it with six further slots: DE, model.time, model.group, model.time.group, type and experiment. The class lmmsde is returned when applying lmmsDE method.
Slots
DE- A
data.frame returning p-values and adjusted p-values using Benjamini-Hochberg correction for multiple testing of the differential expression testing over time, group or their interaction. modelsUsed- A
list of lme, containing the models used to model the particular condition of interest. predTime- A
matrix returning the predicted time fit. predGroup- A
matrix returning the predicted group fit. predTimeGroup- A
matrix returning the predicted time group interaction fit. modelTime- A
list of classlme, containing the models for every molecule modelling the time effect. modelGroup- A
list of class lme, containing the models for every molecule modelling group effect. modelTimeGroup- A
list of class lme, containing the models for every molecule modelling time and group interaction effect. type- An object of class
character, describing the test performed. experiment- An object of class
character describing the model used to perform differential expression analysis.