Returns the a list with three dataframes for three statistical models. One for each Protein, PTM, and PTM adjusted for protein level.
A list of three dataframes
List objects: PTM.Model, Protein.Model, Adjusted.Model (all
dataframe). Columns as follows:
Protein : Protein ID
Label: Label of the pairwise comparision or contrast
log2FC: Log2 fold change
SE: Standard error of the comparsion of contrast results
DF: Degree of freedom
pvalue: Value of p statistic of the test
adj.pvalue: adjusted p value
issue: used for indicating the reason why a comparison is not testable. NA means the comparison is testable. 'oneConditionMissing' means the protein has no measurements in one conndition of the comparison. Furtherone, when 'issue = oneConditionMissing', 'log2FC = Inf' means the negative condition (with coefficient -1 in the Label column) is missing and 'log2FC = -Inf' means the positive condition (with coefficient 1 in the Label column) is missing. completeMissing' means the protein has no measurements in all the connditions of the comparison. unfittableModel' means there is no enough measurements to fit the linear model. In other words, each condition has only one measurement.
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