filterICFSpot: filterICFSpot

filterICFSpotR Documentation

filterICFSpot

Description

Filter Interaction Changed Feature scores for spots.

Usage

filterICFSpot(
  icfObject,
  min_cells = 4,
  min_cells_expr_resi = 0.05,
  min_int_cells = 4,
  min_int_cells_expr_resi = 0.05,
  min_fdr = 0.5,
  min_pcc_diff = 0.05,
  min_zscore = 0.05,
  zscores_column = c("cell_type", "features"),
  direction = c("both", "up", "down")
)

Arguments

icfObject

ICF (interaction changed feature) score object

min_cells

minimum number of source cell type

min_cells_expr_resi

minimum expression residual level for source cell type

min_int_cells

minimum number of interacting neighbor cell type

min_int_cells_expr_resi

minimum expression residual level for interacting neighbor cell type

min_fdr

minimum adjusted p-value

min_pcc_diff

minimum absolute pcc difference difference

min_zscore

minimum z-score change

zscores_column

calculate z-scores over cell types or features

direction

differential expression directions to keep

Value

icfObject that contains the filtered differential feature scores


drieslab/Giotto_site_suite documentation built on April 26, 2023, 11:51 p.m.