cisEffectTable: Table of cis-effect test results

In sigaR: Statistics for Integrative Genomics Analyses in R

Description

Function to display the results of cisEffectTest-function in a table-format. Table may be restricted to a specified number of genes and sorted by relevant statistics.

Usage

cisEffectTable(testRes, number=10, sort.by=NULL)

Arguments

testRes	Object of class cisTest as produced by the cisEffectTest-function.
number	Number of genes whose results are to be included in the table.
sort.by	character indicating how the table is to sorted: NULL no sorting (genomic order), p.value, R2 or effect sort the table by the corresponding statistic.

Author(s)

Wessel N. van Wieringen: [e-mail]

References

Van Wieringen, W.N., Van de Wiel, M.A. (2009), "Non-parametric testing for DNA copy number induced differential mRNA gene expression", Biometrics, 65(1), 19-29.

See Also

cisEffectTest

Examples

# load data
data(pollackCN16)
data(pollackGE16)

# test cis-effect of DNA copy number on gene expression levels
cisRes <- cisEffectTest(pollackCN16, pollackGE16, 1:nrow(pollackGE16), 1, nPerm=25)

# display top results
cisEffectTable(cisRes, number=10, sort.by="R2")

sigaR documentation built on April 28, 2020, 6:05 p.m.