get_hit_prots: Retrieve functional assay hits from datasource
In dbottomly/HitWalker: Network-based variant prioriziation using functional assay scores

Description Usage Arguments Value Note Author(s) See Also Examples

This function retrieves the hit data from the specified connection and summarizes the scores as specified in the function retrieved through the getScoreSummaryFunc method of priorDbParams.

1	get.hit.prots(sample.id.list, db.con, param.obj)

`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.
`db.con`	An object inherited from `DBIConnection` which represents the datasource
`param.obj`	A `priorDbParams` object

A list with three elements:

protein.scores: A vector containing scores for each of the specified summary IDs values with corresponding names.
query.dta: The data.frame retrieved from the hit query with the additional combined hit score column.
summary.id: The summary ID column to use for hit data downstream.

The score summary function should take a data.frame as the argument and return a modified data.frame containing an additional column named as in the getCombScoreName method of priorDbParams.

Daniel Bottomly

priorDbParams

set.seed(123)
if (require(RSQLite) && require(HitWalkerData))
{
	data(params)
	db.con <- dbConnect("SQLite", hitwalker.db.path())
	sample.id.list <- reconcile.sample.name("08-00102", db.con, examp.prior.param)
	hit.list <- get.hit.prots(sample.id.list, db.con, examp.prior.param)
	dbDisconnect(db.con)
}