PAPi: Predict metabolic pathway activity based on metabolomics data

The Pathway Activity Profiling - PAPi - is an R package for predicting the activity of metabolic pathways based solely on a metabolomics data set containing a list of metabolites identified and their respective abundances in different biological samples. PAPi generates hypothesis that improves the final biological interpretation. See Aggio, R.B.M; Ruggiero, K. and Villas-Boas, S.G. (2010) - Pathway Activity Profiling (PAPi): from metabolite profile to metabolic pathway activity. Bioinformatics.

AuthorRaphael Aggio
Date of publicationNone
MaintainerRaphael Aggio <raphael.aggio@gmail.com>
LicenseGPL(>= 2)
Version1.14.0

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Files

PAPi/DESCRIPTION
PAPi/NAMESPACE
PAPi/R
PAPi/R/addKeggCodes.R PAPi/R/buildDatabase.R PAPi/R/papi.R PAPi/R/papiHtest.R PAPi/R/papiLine.R
PAPi/build
PAPi/build/vignette.rds
PAPi/data
PAPi/data/keggLibrary.rda
PAPi/data/metabolomicsData.rda
PAPi/data/papiData.rda
PAPi/data/papiResults.rda
PAPi/inst
PAPi/inst/databases
PAPi/inst/databases/default
PAPi/inst/databases/default/COMPbase.csv
PAPi/inst/databases/default/PATHbase.csv
PAPi/inst/doc
PAPi/inst/doc/PAPi.pdf
PAPi/inst/doc/PAPiPackage.R
PAPi/inst/doc/PAPiPackage.Rnw
PAPi/inst/doc/PAPiPackage.pdf
PAPi/man
PAPi/man/PAPi-package.Rd PAPi/man/addKeggCodes.Rd PAPi/man/buildDatabase.Rd PAPi/man/keggLibrary.Rd PAPi/man/metabolomicsData.Rd PAPi/man/papi.Rd PAPi/man/papiData.Rd PAPi/man/papiHtest.Rd PAPi/man/papiLine.Rd PAPi/man/papiResults.Rd
PAPi/unitTests
PAPi/unitTests/test.addKeggCodes.R
PAPi/unitTests/test.papiHtest.R
PAPi/unitTests/test.papiLine.R
PAPi/vignettes
PAPi/vignettes/PAPi.pdf
PAPi/vignettes/PAPiPackage.Rnw

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