Performs single omic analysis of proteomic layer. — protein_DE_analysis • Omix

Performs single omic analysis of proteomic layer.

protein_DE_analysis(
  multiassay,
  slot = "protein_processed",
  dependent = "diagnosis",
  covariates = NULL,
  levels = c("Control", "AD"),
  log2FoldChange = 0.5,
  padj = 0.05
)

Arguments

multiassay: Multiassay object generated by Omix
slot: Default to "protein_processed"
dependent: Dependent variable for the DeSEQ2 analysis, usually the disease group variable
covariates: Technical and biological covariates
levels: Character vector with reference group as first element.
log2FoldChange: Log2FC absolute threshold
padj: adjusted p value threshold. Default to 0.05

Value

Adds differential expression results to Multiassay object generated by Omix

See also

Other Single-omic: DE_multiomics(), rna_DE_analysis(), single_omic_comparisons(), spls_wrapper(), wgcna_wrapper()