Performs single omic analysis of transcriptomics layer. — rna_DE_analysis • Omix

Performs single omic analysis of transcriptomics layer.

rna_DE_analysis(
  multiassay,
  dependent = "diagnosis",
  levels = NULL,
  filter_protein_coding = TRUE,
  log2FoldChange = 0.5,
  padj = 0.05
)

Arguments

multiassay: Multiassay object generated by Omix
dependent: Dependent variable in the differential expression analysis
levels: Levels for dependent variable. Control group should be put first.
filter_protein_coding: Logical whether to filter out non protein coding genes
log2FoldChange: log2 fold-change cutoff.
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(), protein_DE_analysis(), single_omic_comparisons(), spls_wrapper(), wgcna_wrapper()