inactiveTargets: Takes a single cid and returns a table of the proteins it has...

In girke-lab/bioassayR: Cross-target analysis of small molecule bioactivity

Takes a single cid and returns a table of the proteins it has been found inactive against.

Description

Returns a data.frame of all targets a single cid (compound) has been found inactive against, and the number of times it has been found inactive in distinct assay experiments. If a compound has been found both active and inactive in different assays, it will be listed among these results.

Usage

inactiveTargets(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 inactivity against, and the column shows the number of assays in which it was found to be inactive.

Author(s)

Tyler Backman

See Also

activeTargets

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 inactivity against
myCidInactiveTargets <- row.names(inactiveTargets(sampleDB, "2244"))

## disconnect from database
disconnectBioassayDB(sampleDB)

girke-lab/bioassayR documentation built on April 28, 2022, 7:34 a.m.