CePa (version 0.8.1)

print.cepa.all: print the cepa.all object

Description

print the cepa.all object

Usage

# S3 method for cepa.all
print(x, ...)

Arguments

x

a cepa.all object

...

other arguments

Author

Zuguang Gu <[e-mail]>

Details

The function print the number of significant pathways under various centrality measures at p-value <= 0.01.

See Also

cepa.all

Examples

if (FALSE) {
data(PID.db)

# ORA extension
data(gene.list)
# will spend about 20 min
res.ora = cepa.all(dif = gene.list$dif, bk = gene.list$bk, pc = PID.db$NCI)
res.ora

# GSA extension
# P53_symbol.gct and P53_cls can be downloaded from
# http://mcube.nju.edu.cn/jwang/lab/soft/cepa/
eset = read.gct("P53_symbol.gct")
label = read.cls("P53.cls", treatment="MUT", control="WT")
# will spend about 45 min
res.gsa = cepa.all(mat = eset, label = label, pc = PID.db$NCI)
res.gsa
}