combine.sims {CancerMutationAnalysis} | R Documentation |
This function is used to combine two SetMethodSims
objects,
which have the results from simulated datasets, provided that
the values for pass.null, perc.samples,
and spiked.set.sizes
match up when the objects are generated with the
sim.data.p.values
function.
combine.sims(obj1, obj2)
obj1 |
Object of the class |
obj2 |
Object of the class |
An object of the class SetMethodsSims
. See
SetMethodsSims
for more details.
Simina M. Boca, Giovanni Parmigiani.
Boca SM, Kinzler KW, Velculescu VE, Vogelstein B, Parmigiani G. Patient-oriented gene-set analysis for cancer mutation data. Genome Biology. DOI:10.1186/gb-2010-11-11-r112
SetMethodsSims-class
,
cma.set.sim
## Not run: ##Note that this takes a few minutes to run: library(KEGG.db) data(ParsonsGBM08) data(EntrezID2Name) setIDs <- c("hsa00250", "hsa05213") set.seed(831984) ResultsSim <- sim.data.p.values(cma.alter = GeneAlterGBM, cma.cov = GeneCovGBM, cma.samp = GeneSampGBM, GeneSets = KEGGPATHID2EXTID[setIDs], ID2name = EntrezID2Name, nr.iter = 2, pass.null = TRUE, perc.samples = c(75, 95), spiked.set.sizes = 50, perm.null.method = TRUE, pass.null.method = TRUE) ResultsSim combine.sims(ResultsSim, ResultsSim) ## End(Not run)