Item indices of a MgsaSets
Length of a MgsaSets.
Gene Ontology annotations
Instances of this class are used to hold the additional information
that was provided by running (possibly multiple times) an MCMC algorithm.
How many MCMC runs
Set annotations of a MgsaSets
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).
Example GO sets for mgsa
How many samples per MCMC run collected
Plot method for MgsaResults objects
Posterior for beta
Read a Gene Ontology annotation file
posterior estimates of the parameter p for each MCMC run
Size of the population of a MgsaResults
Item annotations of a MgsaSets
Example objects for mgsa
Results of an MGSA analysis
Sets of items and their annotations
How many steps per MCMC run
Size of the study set of a MgsaResults
Subset of an MgsaSets
posterior estimates of the parameter beta for each MCMC run
Posterior for beta
Show an MgsaResults
Show an MgsaSets
posterior estimates of the parameter alpha for each MCMC run
Posterior for alpha
Performs an MGSA analysis
Model-based gene set analysis
Posterior for each set
posterior estimates of the the set marginal probabilities for each MCMC run