get_sample_overlays: Retrieve sample-specific metadata
In dbottomly/HitWalker: Network-based variant prioriziation using functional assay scores

Description Usage Arguments Value Author(s) See Also Examples

This function retrieves sample-level gene annotation (e.g. differential expression, methylation status) and returns a revised annotatedIGraph object with the sample-specific data merged in with the existing annotation.

1	get.sample.overlays(db.con, param.obj, graph.obj, sample.id.list)

`db.con`	An object inheriting from `DBIConnection` representing the datasource
`param.obj`	A `priorDbParams` object
`graph.obj`	An `annotatedIGraph` object
`sample.id.list`	A list with three elements: 'recon' is the human readable name, 'ind' is the database index value and 'num.pats' is the number of samples in the database.

An annotatedIGraphcontaining the sample-specific data merged in with the exising annotation supplied in graph.obj.

Daniel Bottomly

annotatedIGraph, priorDbParams

if (require(RSQLite) && require(HitWalkerData))
{
	set.seed(123)
	data(params)
	db.con <- dbConnect("SQLite", hitwalker.db.path())
	graph.obj <- loadGraph(graph.file.path(), examp.prior.param)
	sample.id.list <- reconcile.sample.name("08-00102", db.con, examp.prior.param)
	new.graph.obj <- get.sample.overlays(db.con, examp.prior.param, graph.obj, sample.id.list)
	##Note that the graph.obj will look the same in this example.  See the Hitwalker_Add_Metadata vignette for an actual example
}