scGOclust (version 0.2.1)

plotCellTypeSankey: plot Sankey diagram for cell type links above a certain threshould

Description

plot Sankey diagram for cell type links above a certain threshould

Usage

plotCellTypeSankey(corr_matrix, corr_threshould = 0.1, ...)

Value

a Sankey plot showing related cell types

Arguments

corr_matrix

cell type corr matrix from crossSpeciesCellTypeGOCorr

corr_threshould

minimum corr value for positively related cell types, default 0.6

...

additional params for sankeyNetwork

Examples

# \donttest{
library(scGOclust)
library(httr)
httr::set_config(httr::config(ssl_verifypeer = FALSE))
data(mmu_tbl)
data(mmu_subset)
go_seurat_obj = makeGOSeurat(ensembl_to_GO = mmu_tbl,
 seurat_obj = mmu_subset,
 feature_type = "external_gene_name")

cell_type_go = getCellTypeGO(go_seurat_obj = go_seurat_obj, cell_type_co = "cell_type_annotation")
corr_matrix = cellTypeGOCorr(cell_type_go = cell_type_go, corr_method = "pearson")

plotCellTypeSankey(corr_matrix = corr_matrix, 0.1)
# }