Pseudotime_inference based on integrated embeddings and clusters — pseudotime_inference • Omix

Pseudotime_inference based on integrated embeddings and clusters

pseudotime_inference(
  model,
  clusters,
  time_factor = 8,
  second_factor = 1,
  lineage = "Lineage1",
  start.clus = 1,
  end.clus = 2
)

Arguments

model: MOFA model from integration in multiassay@metadata$integration$MOFA
clusters: cluster generated from MOFA2::cluster_samples or other clustering method
time_factor: MOFA factor corresponding to time
second_factor: MOFA factor used as other axis of variation in the embedding
lineage: lineage
start.clus: Starting cluser
end.clus: Ending cluser

Value

A list object with model and plot slots

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_modules(), multiomics_network_matrix(), multiomics_network(), plot_module_trajectory(), posterior_probability(), sign_signature()