createMgsaGoSets

a character vector of GO ids (GO:00001234)

go.ids

a vector of identifiers that are annotated to the term
in the corresponding position of the go.ids vector.

items


This functions takes a 1:1 mapping of go.ids to items and returns
a full MgsaGOSets instance. The structure of GO is gathered from GO.db. It
is sufficient to specify just the directly asserted mapping (or annotation),
i.e., the most specific ones. The true path rule is taken account, that is, if an
item is annotated to a term then it will be also annotated to more general
terms (some people prefer to say that just the transitive closure is calculated).


Model-based Gene Set Analysis (MGSA) is a Bayesian
modeling approach for gene set enrichment. The package mgsa
implements MGSA and tools to use MGSA together with the Gene
Ontology.

Sebastian Bauer

mgsa

Model-based gene set analysis

createMgsaGoSets function

This functions takes a 1:1 mapping of go.ids to items and returns
a full MgsaGOSets instance. The structure of GO is gathered from GO.db. It
is sufficient to specify just the directly asserted mapping (or annotation),
i.e., the most specific ones. The true path rule is taken account, that is, if an
item is annotated to a term then it will be also annotated to more general
terms (some people prefer to say that just the transitive closure is calculated).

Description

Usage

Arguments