computeInfRV: Compute inferential relative variance (InfRV)

In fishpond: Fishpond: differential transcript and gene expression with inferential replicates

Description

InfRV is used the Swish publication for visualization. This function provides computation of the mean InfRV, a simple statistic that measures inferential uncertainty. Note that InfRV is not used in the swish statistical method at all, it is just for visualization. See function code for details.

Usage

computeInfRV(y, pc = 5, shift = 0.01, meanVariance)

Arguments

y	a SummarizedExperiment
pc	a pseudocount parameter for the denominator
shift	a final shift parameter
meanVariance	logical, use pre-computed inferential mean and variance assays instead of counts and computed variance from infReps. If missing, will use pre-computed mean and variance when present.

Value

a SummarizedExperiment with meanInfRV in the metadata columns

fishpond documentation built on Nov. 8, 2020, 7:54 p.m.