Compute the module eigen value (PC1 of scaled transcriptomics/proteomics expression) and correlates it to chosen covariates — multiomics_modules • Omix

Compute the module eigen value (PC1 of scaled transcriptomics/proteomics expression) and correlates it to chosen covariates

multiomics_modules(
  multiassay,
  metadata,
  covariates,
  communities,
  filter_string_50 = FALSE
)

Arguments

multiassay: Multiassay experiment object generated by Omix
metadata: metadata dataframe including chosen covariates
covariates: clinical covariates
communities: communities slot generated generated by communities_network
filter_string_50: should be set to TRUE if MOFA integration was used

Value

a list object with metadata_modules, corrplot,moduleTraitCor, moduleTraitPvalue,moduleColors,moduleLabels,modules_eigen_value

See also

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