analyzeResidualError: Analyze quality of uncertainty in ancestral or hidden state...

In wu-lab-uva/RasperGade: Reconstructing Ancestral State under Pulsed Evolution in R by Gaussian Decomposition

Analyze quality of uncertainty in ancestral or hidden state prediction

Description

Analyze quality of uncertainty in ancestral or hidden state prediction from different perspectives

Usage

analyzeResidualErrorByPPplot(
  trait,
  pred,
  error,
  epsilon = 0,
  laplace = FALSE,
  discrete = FALSE,
  n = 1000
)

analyzeResidualErrorByHeteroscedasticity(
  trait,
  pred,
  error,
  epsilon = 0,
  laplace = FALSE,
  bin = 100,
  n = 1000
)

analyzeResidualErrorByCI(
  trait,
  pred,
  error,
  epsilon = 0,
  laplace = FALSE,
  bin = 20,
  alpha = 0.05
)

Arguments

trait	true trait values
pred	point estimates of ancestral or hidden states
error	uncertainty of predictions
epsilon	variance of time-independent variation
laplace	logical, if true, time-independent variation follows a Laplace distribution
discrete	logical, if true, results should be analyzed as integers
bin	number of bins in the test

wu-lab-uva/RasperGade documentation built on June 24, 2022, 2:47 p.m.