Create vector of comparisons for DE analysis (either by single condition (sep = NULL) or by combined condition) — specify_comparisons • PRONE

Create vector of comparisons for DE analysis (either by single condition (sep = NULL) or by combined condition)

Usage

specify_comparisons(se, condition = NULL, sep = NULL, control = NULL)

Arguments

se: SummarizedExperiment containing all necessary information of the proteomics data set
condition: Column name of condition (if NULL, condition saved in SummarizedExperiment will be taken)
sep: Separator that separates both groups in the condition vector (NULL if condition composed only of single group)
control: String of control samples (how the control condition is named) (NULL if no control sample)

Value

Vector of comparisons for DE analysis

Examples

data(tuberculosis_TMT_se)
comparisons <- specify_comparisons(tuberculosis_TMT_se, condition = NULL,
                            sep = NULL, control = NULL)
#> Condition of SummarizedExperiment used!