activeTargets: Show targets against which a small molecule is active

In bioassayR: Cross-target analysis of small molecule bioactivity

Description

Returns a data.frame of the targets, which a given small molecule (specified by cid) shows activity against. For each target, a single row shows the total number of distinct screens it participated in, and the fraction of those in which it exhibits activity.

Usage

activeTargets(database, cid)

Arguments

database	A BioassayDB database to query.
cid	A string or integer containing a cid referring to a small molecule.

Value

A data.frame where the row names represent each target the specified compound shows activity against, and the columns show the total screens and the fraction in which the compound was active.

Author(s)

Tyler Backman

See Also

inactiveTargets

Examples

## connect to a test database
extdata_dir <- system.file("extdata", package="bioassayR")
sampleDatabasePath <- file.path(extdata_dir, "sampleDatabase.sqlite")
sampleDB <- connectBioassayDB(sampleDatabasePath)

## get targets that compound 2244 shows activity against
myTargets <- row.names(activeTargets(sampleDB, "2244"))

## disconnect from database
disconnectBioassayDB(sampleDB)

bioassayR documentation built on March 1, 2021, 2 a.m.