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goProfiles (version 1.34.0)
goProfiles: an R package for the statistical analysis of functional profiles
Description
The package implements methods to compare lists of genes based on comparing the corresponding 'functional profiles'.
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Version
1.34.0
1.32.0
1.30.0
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Version
1.34.0
License
GPL-2
Maintainer
Alex Sanchez
Last Published
March 29th, 2016
Functions in goProfiles (1.34.0)
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expandedLevel
Function to create expanded levels which can contain GO Terms at different GO levels
contractedProfile
Converts an expanded GO profile into a basic (contracted) GO profile
goProfiles-package
Performs Gene Ontology based analysis using Functional Profiles.
conversionFunctions
Functions to transformconvert objects between different types
compSummary
This function returns a brief summary of the comparison between two (expanded) profiles.
omimIds
Entrez identifiers for disease-related genes in the OMIM database
equivSummary
This function returns a brief summary of the equivalence test between two profiles.
CD4Ids
Entrez identifiers for CD4-TCells example
basicProfile
Builds basic functional profile
GOTermsList
Functions to create and manage lists of GO terms associated with a vector of 'Entrez' identifiers
compareProfilesLists
Compares two of expanded profiles
drosophila
Entrez identifiers for genes related with an eye mutation in drosophila
compareGeneLists
Compares two lists of genes by building (expanded) profiles and comparing them
compareGOProfiles
Comparison of lists of genes through their functional profiles
fitGOProfile
Does a "sample" GO profile 'pn', observed in a sample of 'n' genes, fit a "population" or "model" p0?
equivalentGOProfiles
Are two lists of genes equivalent in terms of their Gene Ontology profiles?
printProfiles
Print functional profiles
hugoIds
Entrez Identifiers obtained from the Human Genome Organization
plotProfiles
Plot functional profiles
prostateIds
Prostate cancer-related genes
expandedProfile
Builds expanded profiles
ngenes
Returns the number of genes that lead to this GO profile (an object of class ExpandedGOProfile, BasicGOProfile or assimilable to them)
mergeProfilesLists
Combines two lists of profiles into one
fisherGOProfiles
GO Class-by-class Fisher tests in lists of genes characterized by their functional profiles