singleCellHaystack (version 1.0.2)

get_density: Function to get the density of points with value TRUE in the (x,y) plot

Description

Function to get the density of points with value TRUE in the (x,y) plot

Usage

get_density(
  x,
  y,
  detection,
  rows.subset = 1:nrow(detection),
  high.resolution = FALSE
)

Value

A 3-dimensional array (dim 1: genes/rows of expression, dim 2 and 3: x and y grid points) with density data

Arguments

x

x-axis coordinates of cells in a 2D representation (e.g. resulting from PCA or t-SNE)

y

y-axis coordinates of cells in a 2D representation

detection

A logical matrix or dgRMatrix showing which gens (rows) are detected in which cells (columns)

rows.subset

Indices of the rows of 'detection' for which to get the densities. Default: all.

high.resolution

Logical: should high resolution be used? Default is FALSE.