Connect to an OMOP Common Data Model
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Documentation for package ‘CDMConnector’ version 2.4.0
Help Pages
| appendPermanent | Run a dplyr query and add the result set to an existing |
| asDate | as.Date dbplyr translation wrapper |
| benchmarkCDMConnector | Run benchmark of tasks using CDMConnector |
| cdmCommentContents | Insert Patient CDM Contents as Aligned Comments in RStudio |
| cdmCon | Get underlying database connection |
| cdmDisconnect.db_cdm | Disconnect the connection of the cdm object |
| cdmFlatten | Flatten a cdm into a single observation table |
| cdmFromCohortSet | Build a Synthetic CDM from a Cohort Set |
| cdmFromCon | Create a CDM reference object from a database connection |
| cdmSample | Subset a cdm object to a random sample of individuals |
| cdmSubset | Subset a cdm object to a set of persons |
| cdmSubsetCohort | Subset a cdm to the individuals in one or more cohorts |
| cdmWriteSchema | Get cdm write schema |
| computeDataHashByTable | Compute a hash for each CDM table |
| computeQuery | Execute dplyr query and save result in remote database |
| copyCdmTo | Copy a cdm object from one database to another |
| dateadd | Add days or years to a date in a dplyr query |
| datediff | Compute the difference between two days |
| datepart | Extract the day, month or year of a date in a dplyr pipeline |
| dbms | Get the database management system (dbms) from a cdm_reference or DBI connection |
| dbSource | Create a source for a cdm in a database. |
| downloadEunomiaData | Download Eunomia data files |
| dropTable.db_cdm | Drop table from a database backed cdm object |
| eunomiaDir | Create a copy of an example OMOP CDM dataset |
| eunomiaIsAvailable | Has the Eunomia dataset been cached? |
| exampleDatasets | List the available example CDM datasets |
| generateCohortSet | Generate a cohort set on a cdm object |
| generateConceptCohortSet | Create a new generated cohort set from a list of concept sets |
| inSchema | Helper for working with compound schema |
| listTables | List tables in a schema |
| readCohortSet | Read a set of cohort definitions into R |
| requireEunomia | Require eunomia to be available. The function makes sure that you can later create a eunomia database with 'eunomiaDir()'. |
| snapshot | Extract CDM metadata |
| summariseQuantile | Quantile calculation using dbplyr |
| summariseQuantile2 | Quantile calculation using dbplyr |
| tblGroup | CDM table selection helper |
| version | Get the CDM version |