plotRunningES: Visualize the Kolmogorov-Smirnov running score of pathway

In LncPath: Identifying the Pathways Regulated by LncRNA Sets of Interest

Description

Visualize the Kolmogorov-Smirnov running score of each gene of a certain pathway

Usage

plotRunningES(Result, Name)

Arguments

Result	A lncPath object come from the lncPath function.
Name	A string, the name of the pathway to be plot.

Details

Plot the KS-statistic running score of certain pathway. The plot has three sections, the top section is a curve describes the cumulative ES score of pathway through all coding genes. The middle section contains signals telling which gene is in the pathway. The bottom section describes the weight distribution of genes.

Author(s)

Junwei Han <[e-mail]>, Zeguo Sun <[e-mail]>

References

Subramanian, A., Tamayo, P., Mootha, V.K., Mukherjee, S., Ebert, B.L., Gillette, M.A., Paulovich, A., Pomeroy, S.L., Golub, T.R., Lander, E.S. et al. (2005) Gene set enrichment analysis: a knowledgebased approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A, 102, 15545-15550.

Examples

##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

Result <- getExampleData("Result")
plotRunningES(Result, "KEGG_RIBOSOME")

LncPath documentation built on May 2, 2019, 11:03 a.m.