qplot.data: .qplot.data This code is taken from qvalue::qplot (from...

In drmjc/metaGSEA: Meta-analysis of GSEA analyses, including intra- and inter-experiment comparisons

Description

.qplot.data This code is taken from qvalue::qplot (from R2.9.0) in order to export the required data for my LimmaGP GenePattern module

Usage

.qplot.data(qobj, rng = c(0, 0.1), smooth.df = 3, smooth.log.pi0 = FALSE,
  ...)

Arguments

qobj	a qvalue object.
rng	see qplot
smooth.df	see qplot
smooth.log.pi0	see qplot
...	unused

Value

a named list of 4 vectors:

lambda	the lambda values (usually 0...0.9)
pi0	the estimated pi0 for each lambda
spline	the cubed spline values for each lambda
pi0.estimate	the final pi0 estimate (from the qobj itself). length 1

for example: List of 4 $ lambda : num [1:20] 0 0.05 0.1 0.15 0.2 0.25 0.3 0.35 0.4 0.45 ... $ pi0 : num [1:20] 1 0.975 0.961 0.942 0.92 ... $ spline : num [1:20] 0.987 0.97 0.953 0.936 0.92 ... $ pi0.estimate: num 0.793

Author(s)

Mark Cowley, 2009-11-30

See Also

qplot

drmjc/metaGSEA documentation built on Aug. 8, 2020, 1:53 p.m.