R Graphical Manual

Last data update: 2014.03.03

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MeSHHyperGParams-class (Package: meshr) : Class "MeSHHyperGParams"

A parameter class for representing all parameters needed for running the 'meshHyperGTest' method with one of the MeSH categories ("Anatomy", "Organisms", "Diseases", "Chemicals and Drugs", "Analytical, Diagnostic and Therapeutic Techniques and Equipment", "Psychiatry and Psychology", "Phenomena and Processes", "Disciplines and Occupations", "Anthropology, Education, Sociology and Social Phenomena", "Technology and Food and Beverages", "Humanities", "Information Science", "Persons", "Health Care", "Publication Type", "Geographical Locations").

● Data Source: BioConductor
● Keywords: classes
● Alias: MeSHHyperGParams-class
● 0 images

MeSHHyperGResult-class (Package: meshr) : Class "MeSHHyperGResult"

This class represents the results of a test for overrepresentation of MeSH terms among genes in a selected gene set based upon the Hypergeometric distribution.

● Data Source: BioConductor
● Keywords: classes
● Alias: MeSHHyperGResult-class
● 0 images

category (Package: meshr) : A function to return the name of MeSH category

This function returns the name of MeSH category.

● Data Source: BioConductor
● Keywords: methods
● Alias: category, category,MeSHHyperGParams-method, category<-, category<-,MeSHHyperGParams,character-method, generic,category
● 0 images

database (Package: meshr) : A function to return the name of MeSH database

This function returns the name of MeSH database.

● Data Source: BioConductor
● Keywords: methods
● Alias: database, database,MeSHHyperGParams-method, database<-, database<-,MeSHHyperGParams,character-method, generic,database
● 0 images

meshHyperGTest (Package: meshr) : Hypergeometric Tests for MeSH term association

Given a MeSHHyperGParams object containing a set of selected and background gene IDs, and gene-MeSH annotation data of interest, meshHyperGTest performs Hypergeomtric test for over-representation of each MeSH term accouting for the multiple testing correction.

● Data Source: BioConductor
● Keywords: models
● Alias: meshHyperGTest, meshHyperGTest,MeSHHyperGParams-method
● 0 images

meshr-package (Package: meshr) :

meshr package conducts a MeSH enrichment analysis employing gene-MeSH annotation data. A hypergeometric test accounting for a multiple tesing correction is used to find significantly enriched MeSH terms.

● Data Source: BioConductor
● Keywords: package
● Alias: meshr, meshr-package
● 0 images