combineCellProximityGenes: combineCellProximityGenes

In RubD/Giotto: Spatial Single-Cell Transcriptomics Toolbox

combineCellProximityGenes

Description

Combine ICG scores in a pairwise manner.

Usage

combineCellProximityGenes(...)

Arguments

...

Arguments passed on to combineInteractionChangedGenes 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

See Also

combineInteractionChangedGenes

RubD/Giotto documentation built on April 29, 2023, 5:52 p.m.