calc_ess: Calculates the Effective Sample Size

In ropensci/tracerer: Tracer from R

Calculates the Effective Sample Size

Description

Calculates the Effective Sample Size

Usage

calc_ess(trace, sample_interval)

Arguments

trace	the values without burn-in
sample_interval	the interval in timesteps between samples

Value

the effective sample size

Author(s)

The original Java version of the algorithm was from Remco Bouckaert, ported to R and adapted by Richèl J.C. Bilderbeek

See Also

Java code can be found here: https://github.com/CompEvol/beast2/blob/9f040ed0357c4b946ea276a481a4c654ad4fff36/src/beast/core/util/ESS.java#L161 # nolint URLs can be long

Examples

filename <- get_tracerer_path("beast2_example_output.log")
estimates <- parse_beast_tracelog_file(filename)
calc_ess(estimates$posterior, sample_interval = 1000)

ropensci/tracerer documentation built on Oct. 1, 2023, 2:03 p.m.