This function takes input data and goes through data processing procedures for CCI analysis.
Usage
preprocessGiotto(
expr_data,
spatial_data,
run_hvg = T,
run_kNN_network = F,
run_Delaunay_network = F,
run_Dist_network = F,
k = 5,
dis.cut = NULL
)Arguments
- expr_data
expr_data
- spatial_data
spatial_data
- run_hvg
run_hvg
- run_kNN_network
Run K-nearest neighbor (kNN) based network.
- run_Delaunay_network
Run Delaunay Triangulation-based network.
- run_Dist_network
Run distance-based network. It requires a value for distance cutoff.
- k
No. of cells k in kNN (Default =5).
- dis.cut
Distance cutoff if run distance-based network