Learn R Programming

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'.

Copy Link

Version

Version

1.34.0

License

GPL-2

Maintainer

Alex Sanchez

Last Published

February 15th, 2017

Functions in goProfiles (1.34.0)

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

This function returns a brief summary of the comparison between two (expanded) profiles.

Entrez identifiers for disease-related genes in the OMIM database

This function returns a brief summary of the equivalence test between two profiles.

Entrez identifiers for CD4-TCells example

Builds basic functional profile

Functions to create and manage lists of GO terms associated with a vector of 'Entrez' identifiers

compareProfilesLists

Compares two of expanded profiles

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

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?

Print functional profiles

Entrez Identifiers obtained from the Human Genome Organization

Plot functional profiles

Prostate cancer-related genes

expandedProfile

Builds expanded profiles

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