limorhyde2 (version 0.1.1)

getStatsIntervals: Compute credible intervals for rhythm or differential rhythm statistics

Description

This function uses posterior samples to quantify uncertainty in the properties of fitted curves.

Usage

getStatsIntervals(posteriorStats, mass = 0.9, method = c("eti", "hdi"))

Value

A data.table containing lower and upper bounds of various statistics for each feature or each feature-condition pair. For peak_trough_amp and rms_amp, a negative lower bound indicates a rhythm of the opposite phase.

Arguments

posteriorStats

A data.table of statistics for posterior samples, as returned by getRhythmStats() or getDiffRhythmStats().

mass

Number between 0 and 1 indicating the probability mass for which to calculate the intervals.

method

String indicating the type of interval: 'eti' for equal-tailed using stats::quantile(), or 'hdi' for highest density using HDInterval::hdi().

See Also

getRhythmStats(), getDiffRhythmStats(), getExpectedMeasIntervals()

Examples

library('data.table')

y = GSE54650$y
metadata = GSE54650$metadata

fit = getModelFit(y, metadata)
fit = getPosteriorFit(fit)
fit = getPosteriorSamples(fit, nPosteriorSamples = 10L)

rhyStatsSamps = getRhythmStats(
  fit, features = c('13170', '13869'), fitType = 'posterior_samples')
rhyStatsInts = getStatsIntervals(rhyStatsSamps)