screenedAtLeast | R Documentation |
Returns all compound cids screened against at least 'minTargets' distinct target identifiers. For a very large database (such as PubChem Bioassay) this function may take a long time to run.
screenedAtLeast(database, minTargets, inconclusives=TRUE)
database |
A |
minTargets |
The minimum number of distinct targets for each returned cid. |
inconclusives |
Logical. If |
Returns a character
vector of all CIDs meeting the specified criteria.
Tyler Backman
## connect to a test database extdata_dir <- system.file("extdata", package="bioassayR") sampleDatabasePath <- file.path(extdata_dir, "sampleDatabase.sqlite") sampleDB <- connectBioassayDB(sampleDatabasePath) ## get all CIDS screened against at least 2 distinct targets highlyScreened <- screenedAtLeast(sampleDB, 2) highlyScreened ## get all CIDS screened against at least 2 distinct targets with conclusive results highlyScreened <- screenedAtLeast(sampleDB, 2, inconclusives=FALSE) highlyScreened ## disconnect from database disconnectBioassayDB(sampleDB)
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