calculate_density: Estimate weighted kernel density

In Nebulosa: Single-Cell Data Visualisation Using Kernel Gene-Weighted Density Estimation

Description

Estimate weighted kernel density

Usage

calculate_density(w, x, method, adjust = 1, map = TRUE)

Arguments

w	Vector with weights for each observation
x	Matrix with dimensions where to calculate the density from. Only the first two dimensions will be used
method	Kernel density estimation method: ks: Computes density using the kda function from the ks package. wkde: Computes density using a modified version of the kde2d function from the MASS package to allow weights. Bandwidth selection from the ks package is used instead.
adjust	Numeric value to adjust to bandwidth. Default: 1. Not available for ks method
map	Whether to map densities to individual observations

Value

If map is TRUE, a vector with corresponding densities for each observation is returned. Otherwise, a list with the density estimates from the selected method is returned.

Author(s)

Jose Alquicira-Hernandez

Examples

dens <- Nebulosa:::calculate_density(iris[, 3], iris[, 1:2], method = "wkde")

Nebulosa documentation built on March 24, 2021, 6 p.m.