Performs differential expression between clusters — clustering_DE_analysis • Omix

Performs differential expression between clusters

clustering_DE_analysis(
  normalized_data,
  colData,
  omic,
  dependent = "Cluster",
  levels = c("CS2", "CS1"),
  log2FoldChange = 0.5
)

Arguments

normalized_data: Normalized rna/protein data
colData: The coldadata variable
omic: protein or mRNA
dependent: The dependent variable
levels: Levels to compare
log2FoldChange: logFC cutoff

See also

Other Multi-omic integration downstream analysis: OpenTarget_dataframe(), Transcription_Factor_enrichment_supervised(), Transcription_Factor_enrichment(), circos_TF(), extract_loadings(), extract_multiomic_signature(), extract_weigths(), integrative_results_clustering(), integrative_results_sparse_supervised(), integrative_results_supervised(), integrative_results_unsupervised(), multiomics_modules(), multiomics_network_matrix(), multiomics_network(), plot_module_trajectory(), posterior_probability(), pseudotime_inference(), sign_signature()