summary.TcGSA {TcGSA} | R Documentation |
Summarizing TcGSA
Description
summary
method for class 'TcGSA
'
Usage
## S3 method for class 'TcGSA'
summary(object, ...)
## S3 method for class 'summary.TcGSA'
print(x, ...)
Arguments
object |
an object of class ' |
... |
further arguments passed to or from other methods. |
x |
an object of class ' |
Value
The function summary.TcGSA returns a list with the following components (list elements):
-
time_func
the chosen form for the time trend. -
separateSubjects
a logical flag indicating whether gene sets tested for discriminating among patients, or for time trends over time. -
ntg
the number of treatment groups. -
ngs
the number of tested gene sets. -
nsignif
the number of significant gene sets at a 5% FDR (using the default Benjamini & Yekutieli step-up procedure).
Author(s)
Boris P. Hejblum
See Also
Examples
if(interactive()){
data(data_simu_TcGSA)
tcgsa_sim_1grp <- TcGSA.LR(expr=expr_1grp, gmt=gmt_sim, design=design,
subject_name="Patient_ID", time_name="TimePoint",
time_func="linear", crossedRandom=FALSE)
summary(tcgsa_sim_1grp)
tcgsa_sim_2grp <- TcGSA.LR(expr=expr_2grp, gmt=gmt_sim, design=design,
subject_name="Patient_ID", time_name="TimePoint",
time_func="linear", crossedRandom=FALSE,
group_name="group.var")
summary(tcgsa_sim_2grp)
}
[Package TcGSA version 0.12.10 Index]