combineCPG

Combine ICG scores in a pairwise manner.

combineCPG(...)

Arguments

...

...	Arguments passed on to `combineICG` `cpgObject` ICG (interaction changed gene) score object `selected_ints` subset of selected cell-cell interactions (optional) `selected_genes` subset of selected genes (optional) `specific_genes_1` specific geneset combo (need to position match specific_genes_2) `specific_genes_2` specific geneset combo (need to position match specific_genes_1) `min_cells` minimum number of target cell type `min_int_cells` minimum number of interacting cell type `min_fdr` minimum adjusted p-value `min_spat_diff` minimum absolute spatial expression difference `min_log2_fc` minimum absolute log2 fold-change `do_parallel` run calculations in parallel with mclapply `cores` number of cores to use if do_parallel = TRUE `verbose` verbose

Arguments passed on to combineICG

cpgObject: ICG (interaction changed gene) score object
selected_ints: subset of selected cell-cell interactions (optional)
selected_genes: subset of selected genes (optional)
specific_genes_1: specific geneset combo (need to position match specific_genes_2)
specific_genes_2: specific geneset combo (need to position match specific_genes_1)
min_cells: minimum number of target cell type
min_int_cells: minimum number of interacting cell type
min_fdr: minimum adjusted p-value
min_spat_diff: minimum absolute spatial expression difference
min_log2_fc: minimum absolute log2 fold-change
do_parallel: run calculations in parallel with mclapply
cores: number of cores to use if do_parallel = TRUE
verbose: verbose