estimate.hyper: Estimate hyperparameters for model using empirical Bayes.

In DeLorean: Estimates Pseudotimes for Single Cell Expression Data

Description

Estimate hyperparameters for model using empirical Bayes.

Usage

estimate.hyper(dl, sigma.tau = 0.5, length.scale = NULL,
  model.name = "exact", adjust.cell.sizes = TRUE)

Arguments

dl	de.lorean object
sigma.tau	Noise s.d. in temporal dimension, that is prior s.d. for tau
length.scale	Length scale for stationary GP covariance function. Defaults to the range of the observed capture times.
model.name	The model's name: 'exact': The model without a low rank approximation that does not estimate the cell sizes. 'exactsizes': The model without a low rank approximation that does estimate the cell sizes. 'lowrank': Low rank approximation to the 'exact' model. 'lowranksizes': Low rank approximation to the 'exactsizes' model.
adjust.cell.sizes	Adjust by the cell sizes for better estimates of the hyperparameters

Examples

data(WindramDeLorean)
dl <- de.lorean(windram.expr, windram.gene.meta, windram.cell.meta)
dl <- estimate.hyper(dl)

DeLorean documentation built on May 2, 2019, 9:24 a.m.