Transfer LDA model from reference data to query data

Source: R/topicModel_predict.R

Transfer LDA model from reference data to query data

transfer_LDA(query_SeuratObj, ref_ldaOUt, by = "GO")

Arguments

query_SeuratObj

query data
ref_ldaOUt

reference LDA model
by

using which GSEA result of query data to transfer, one of "GO", "KEGG", "Reactome", "MSigDb", "WikiPathways", "DO", "NCG", "DGN"

Value

a Seurat object. Transferred LDA model of query data is stored in query_SeuratObj@misc$dist, which is a list containing clusters-by-topics (θ) and topics-by-pathways (ϕ) matrices.

Examples

if (FALSE) {
query_SeuratObj <- transfer_LDA(query_SeuratObj, ref_ldaOUt, by = "GO")
}