Diagnostics for OMOP Common Data Model Drug Records

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Documentation for package ‘DrugExposureDiagnostics’ version 1.0.4

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

checkDaysSupply	Check if Days_supply is the same as datediff(drug_exp_start_date,drug_exp_end_date)
checkDbType	Check the database type.
checkDrugDose	Get a summary of the daily drug dose
checkDrugSig	Check the drug sig field; this is the verbatim instruction for the drug as written by the provider.
checkIsIngredient	Check is an ingredient
checkLogical	Check if given object is a boolean.
checkSampleMinCellCount	Check that the sample is bigger than the mincellcount
checkTableExists	Check if given table exists in cdm.
checkVerbatimEndDate	Check the verbatim_end_date field
computeDBQuery	Store the given input in a remote database table. It will be stored either in a permanent table or a temporary table depending on tablePrefix.
createHistogram	create a histogram for one of days_supply, duration, quantity
dataFrame2Hist	Load an object of class histogram from a data.frame
executeChecks	Execute given checks on Drug Exposure.
executeChecksSingleIngredient	Execute given checks on Drug Exposure for a single ingredient.
getDrugMissings	Check missings in drug exposure records
getDrugRecords	Drug exposure records for ingredients of interest
getDrugRoutes	Get drug exposure route types
getDrugSourceConcepts	Check drug exposure source types
getDrugStrength	Drug strength records for ingredients of interest
getDrugTypes	Get drug exposure record types
getDuration	Compute the difference in days between 2 variables in a database table.
getEunomiaCdm	Get an eunomia CDM reference for given ingredient
hist2DataFrame	Save an object of class histogram to a data.frame
ingredientDescendantsInDb	Get the descendants for the given ingredients
mockDrugExposure	Mock Drug exposure tables for ingredients of interest
obscureCounts	Obscure the small number of counts
printDurationAndMessage	Print duration from start to now and print it as well as new status message
summariseChecks	Create a summary about the diagnostics results
summariseDrugExposureDuration	Summarise drug exposure record durations
summariseQuantity	Summarise the quantity column of the drug_exposure table
writeResultToDisk	Write diagnostics results to a zip file on disk in given output folder.