PROFANCY: The package can prioritize candidate disease metabolites based on global functional relationships between metabolites in the context of metabolic pathways

The package can prioritize the candidate disease metabolites based on the assumption that functionally related metabolites tend to associate with the same or similar diseases in the context of metabolic pathway. The PROFANCY package (1) prioritizes the disease metabolites from global functional similarity and local modularity of the metabolic network; (2) allows users to select default metabolites or input their interested metabolites as seed nodes or candidate nodes (3) can prioritize the candidate metabolites in KEGG or EHMN metabolic network.

AuthorQianlan Yao, Desi Shang, Chunquan Li
Date of publication2013-07-12 08:58:53
MaintainerQianlan Yao <yaoqianlan@yahoo.com>
LicenseGPL (>= 2)
Version1.0

View on CRAN

Files

PROFANCY
PROFANCY/MD5
PROFANCY/NAMESPACE
PROFANCY/vignettes
PROFANCY/vignettes/PROFANCY.Rnw
PROFANCY/R
PROFANCY/R/getTopDiseaseMetaboliteList.R
PROFANCY/man
PROFANCY/man/PROFANCY-internal.Rd PROFANCY/man/initializeData.Rd PROFANCY/man/getTopDiseaseMetabolites.Rd PROFANCY/man/getSeed.Rd PROFANCY/man/getProvidedDiseaseName.Rd PROFANCY/man/getCandidates.Rd PROFANCY/man/envData.Rd PROFANCY/man/aaa-PROFANCY-package.Rd
PROFANCY/inst
PROFANCY/inst/doc
PROFANCY/inst/doc/PROFANCY.pdf
PROFANCY/inst/doc/PROFANCY.Rnw
PROFANCY/inst/localdata
PROFANCY/inst/localdata/ProstateSeeds.txt
PROFANCY/inst/localdata/ProstateCandidates.txt
PROFANCY/DESCRIPTION
PROFANCY/data
PROFANCY/data/envData.rda
PROFANCY/data/datalist

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

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