MetaPath: Perform the Meta-Analysis for Pathway Enrichment Analysis (MAPE)

Perform the Meta-analysis for Pathway Enrichment (MAPE) methods introduced by Shen and Tseng (2010). It includes functions to automatically perform MAPE_G (integrating multiple studies at gene level), MAPE_P (integrating multiple studies at pathway level) and MAPE_I (a hybrid method integrating MAEP_G and MAPE_P methods). In the simulation and real data analyses in the paper, MAPE_G and MAPE_P have complementary advantages and detection power depending on the data structure. In general, the integrative form of MAPE_I is recommended to use. In the case that MAPE_G (or MAPE_P) detects almost none pathway, the integrative MAPE_I does not improve performance and MAPE_P (or MAPE_G) should be used. Reference: Shen, Kui, and George C Tseng. Meta-analysis for pathway enrichment analysis when combining multiple microarray studies.Bioinformatics (Oxford, England) 26, no. 10 (April 2010): 1316-1323. doi:10.1093/bioinformatics/btq148. http://www.ncbi.nlm.nih.gov/pubmed/20410053.

Install the latest version of this package by entering the following in R:
install.packages("MetaPath")
AuthorKui Shen and Geroge Tseng
Date of publication2015-10-03 07:57:54
MaintainerKui Shen <kuishen@alumni.pitt.edu>
LicenseGPL (>= 2.0)
Version1.0

View on CRAN

Functions

cor.func Man page
coxfunc Man page
cox.perm.sample Man page
coxscor Man page
coxstuff Man page
coxvar Man page
Enrichment_KS_gene Man page
Enrichment_KS_sample Man page
F.perm.sample Man page
MAPE Man page
MAPE_G_gene_KS Man page
MAPE_G_sample_KS Man page
MAPE_I_KS Man page
MAPE_P_gene_KS Man page
MAPE_P_sample_KS Man page
MAQC Man page
MetaPath Man page
MetaPath-package Man page
pathway.DB Man page
plotMAPE Man page
pqvalues.compute Man page
reg.perm.sample Man page
Tperm.sample Man page

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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