getTrace: Obtain a trace of inferential replicates for a sample

In mikelove/fishpond: Fishpond: downstream methods and tools for expression data

Obtain a trace of inferential replicates for a sample

Description

Simple helper function to obtain a trace (e.g. MCMC trace) of the ordered inferential replicates for one samples. Supports either multiple features, idx, or multiple samples, samp_idx (not both). Returns a tidy data.frame for easy plotting.

Usage

getTrace(y, idx, samp_idx)

Arguments

y	a SummarizedExperiment with inferential replicates as assays infRep1 etc.
idx	the names or row numbers of the gene or transcript to plot
samp_idx	the names or column numbers of the samples to plot

Value

a data.frame with the counts along the interential replicates, possible with additional columns specifying feature or sample

Examples

y <- makeSimSwishData()
getTrace(y, "gene-1", "s1")

mikelove/fishpond documentation built on Jan. 4, 2025, 1:14 p.m.