getCompoundEvents.IdMapDiffCounts: Get compound events
In IdMappingAnalysis: ID Mapping Analysis

Description Usage Arguments Value Author(s) See Also Examples

Transforms the IdMapDiffCounts triplet <A-A*B, A*B, B-A*B> into the <excess both, excess left etc.> form suitable for using within the fountain plot. Computed on the fly within the IdMapDiffCounts$summary() and IdMapDiffCounts$plot() functions.

1 2	## S3 method for class 'IdMapDiffCounts' getCompoundEvents(this, verbose=FALSE, ...)

`verbose`	If `TRUE` enables diagnostic messages. Default is `FALSE`.
`...`	Not used

A data.frame with 7 columns each corresponding to a particular compaund set derived from the event triplet <A-A*B, A*B, B-A*B> and with rows containing mathches (TRUE or FALSE) for a given primary ID. The columns and the compaund set description are as follows:

`excess.both`	A and B have non-empty intersection and both sets have unique elements
`excess.left`	A and B have non-empty intersection and only A has unique elements
`excess.right`	A and B have non-empty intersection and only B has unique elements
`same.list`	Non-empty A and B are the same
`in.left.only`	Only A set is non-empty
`in.right.only`	Only B set is non-empty
`in.neither`	Both sets are empty

Alex Lisovich, Roger Day

For more information see IdMapDiffCounts.

 #create IdMapDiffCounts object
 IDs<-IdMapBase$primaryIDs(examples$msmsExperimentSet);
 jointIdMap<-JointIdMap(examples$identDfList,primaryIDs=IDs);
 diffs<-jointIdMap$getDiff("NetAffx_F","DAVID_Q",verbose=TRUE);
 diffCounts<-IdMapDiffCounts(diffs);

 # get compound events
 events<-diffCounts$getCompoundEvents();
 events[1:10,];