View source: R/connectome_pipe.R
call_connectome | R Documentation |
Function to call connectome with databases from OmniPath [[DEPRECATED]]
call_connectome(sce, op_resource = NULL, .format = TRUE, assay, ...)
sce |
Seurat object as input |
op_resource |
OmniPath Intercell Resource DN |
.format |
bool whether to format output |
assay |
assay name |
... |
dot params passed to connectome |
Stats: 1) The ‘weight_norm’ edge attribute is derived from the normalized expression of the ligand and the receptor in the single-cell data. 2) The ‘weight_scale’ edge attribute is derived from the z-scores of the ligand and the receptor in each edge, and is of higher value when the ligand and receptor are more specific to a given pair of cell types 3) DEG p-values for L and R
An unfiltered connectome results df
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