define overlap between hot/cold spots of two variables

Source: R/05_Hot_cold_spot_analysis_.R

Given two numeric variables, this function will define hot and cold spots for each variable, and it will annotate cells/spots according to the presence/absence of overlap between the two hot/cold spot annotations. If a hot/cold spot annotation for one or both variables already exist,hotspot analysis will not be rerun for that variable(s)

hotspot_overlap(seurat = NULL, feat.1 = NULL, feat.2 = NULL, ...)

Arguments

seurat

a Seurat object containing Kandinsky data (KanData())

feat.1

character string specifying the name of the first feature to consider

feat.2

character string specifying the name of the second feature to consider

...

arguments passed to hotspot_analysis function

Value

updated Seurat object with a new annotation column reporting the type of overlap between hot/cold spot annotations:

  • 'Hot-Hot': a cell/spot is annotated as 'hot' for both the considered variables

  • 'Cold-Cold': a cell/spot is annotated as 'cold' for both the considered variables

  • 'Cold-Hot': a cell/spot is annotated as 'cold' for one variable and 'hot' for the other

  • 'Hot': a cell/spot is annotated as 'hot' only for one of the two variable (the other is annotated as non-significant 'NS')

  • 'Cold': a cell/spot is annotated as 'cold' only for one of the two variable (the other is annotated as non-significant 'NS')

  • 'NS': a cell/spot is not annotated as either 'hot' or 'cold' for any of the two variables