calcBayesCI: Calculate pathway Confidence Intervals
In qusage: qusage: Quantitative Set Analysis for Gene Expression

Description Usage Arguments Details Value

A function to calculate the confidence intervals for each of the gene sets in the geneResults object

1 2	calcBayesCI(QSarray,low=0.025,up=1-low,addVIF=!is.null(QSarray$vif))

`QSarray`	A `QSarray` object, as generated by either makeComparison or aggregateGeneSet
`low, up`	the lower and upper bounds of the confidence interval.
`addVIF`	a logical indicating whether the VIF should be used to calculate the variance of the pathway.

This function can be used to calculate a confidence interval (CI) for the gene sets in QSarray. By default, a 95% CI is calculated, with the lower and upper bounds at 0.025% and 0.975%, respectively. This function is used in plotCIs to plot the confidence intervals of each pathway.

Matrix of size (2 x numPathways(QSarray)) containing the lower and upper bounds of the confidence intervals for each pathway in QSarray.

qusage documentation built on Nov. 8, 2020, 8:09 p.m.