showSpatialCorGenes: showSpatialCorGenes

In bernard2012/Giotto: Spatial single-cell transcriptomics toolbox

Description

Shows and filters spatially correlated genes

Usage

showSpatialCorGenes(
  spatCorObject,
  use_clus_name = NULL,
  selected_clusters = NULL,
  genes = NULL,
  min_spat_cor = 0.5,
  min_expr_cor = NULL,
  min_cor_diff = NULL,
  min_rank_diff = NULL,
  show_top_genes = NULL
)

Arguments

spatCorObject	spatial correlation object
use_clus_name	cluster information to show
selected_clusters	subset of clusters to show
genes	subset of genes to show
min_spat_cor	filter on minimum spatial correlation
min_expr_cor	filter on minimum single-cell expression correlation
min_cor_diff	filter on minimum correlation difference (spatial vs expression)
min_rank_diff	filter on minimum correlation rank difference (spatial vs expression)
show_top_genes	show top genes per gene

Value

data.table with filtered information

Examples

    showSpatialCorGenes(gobject)

bernard2012/Giotto documentation built on Sept. 22, 2020, 10:29 a.m.