Package: Achilles 1.7.2

Achilles: Achilles Data Source Characterization

Automated Characterization of Health Information at Large-Scale Longitudinal Evidence Systems. Creates a descriptive statistics summary for an Observational Medical Outcomes Partnership Common Data Model standardized data source. This package includes functions for executing summary queries on the specified data source and exporting reporting content for use across a variety of Observational Health Data Sciences and Informatics community applications.

Authors:Frank DeFalco [aut, cre], Patrick Ryan [aut], Martijn Schuemie [aut], Vojtech Huser [aut], Chris Knoll [aut], Ajit Londhe [aut], Taha Abdul-Basser [aut], Anthony Molinaro [aut], Observational Health Data Science and Informatics [cph]

Achilles_1.7.2.tar.gz
Achilles_1.7.2.zip(r-4.7-any)Achilles_1.7.2.zip(r-4.6-any)Achilles_1.7.2.zip(r-4.5-any)
Achilles_1.7.2.tgz(r-4.6-any)Achilles_1.7.2.tgz(r-4.5-any)
Achilles_1.7.2.tar.gz(r-4.7-any)Achilles_1.7.2.tar.gz(r-4.6-any)
Achilles_1.7.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
Achilles/json (API)

# Install 'Achilles' in R:
install.packages('Achilles', repos = c('https://fdefalco.r-universe.dev', 'https://cloud.r-project.org'))
Uses libs:
  • openjdk– OpenJDK Java runtime, using Hotspot JIT

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

openjdk

3.00 score 2 scripts 639 downloads 34 exports 59 dependencies

Last updated from:70772a19cf. Checks:7 WARNING, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develWARNING177
source / vignettesOK248
linux-releaseWARNING176
macos-releaseWARNING204
macos-oldrelWARNING218
windows-develWARNING115
windows-releaseWARNING117
windows-oldrelWARNING99
wasm-releaseOK138

Exports:achillescreateIndicescreateTimeSeriesdropAllScratchTablesexportConditionEraToJsonexportConditionToJsonexportDashboardToJsonexportDataDensityToJsonexportDeathToJsonexportDrugEraToJsonexportDrugToJsonexportMeasurementToJsonexportMetaToJsonexportObservationPeriodToJsonexportObservationToJsonexportPerformanceToJsonexportPersonToJsonexportProcedureToJsonexportResultsToCSVexportToAresexportToJsonexportVisitDetailToJsonexportVisitToJsongetAnalysisDetailsgetSeasonalityScoregetTemporalDataisStationarylistMissingAnalysesoptimizeAtlasCacheperformTemporalCharacterizationrunMissingAnalysesshowReportTypessumAcrossYearstsCompleteYears

Dependencies:backportsbitbit64blobcheckmateclicliprcpp11crayoncurldata.tableDatabaseConnectorDBIdbplyrdigestdplyrgenericsgluehmsjsonlitelatticelifecyclelubridatemagrittrmemuseParallelLoggerpillarpkgconfigprettyunitsprogresspurrrquadprogquantmodR6RcppreadrrJavarlangrstudioapisnowSqlRenderstringistringrtibbletidyrtidyselecttimechangetriebeardtseriesTTRtzdburltoolsutf8vctrsvroomwithrxml2xtszoo

Getting Started with Achilles
Installation | Running Achilles | Developers: How to Add or Modify Analyses | License
Rendered fromGettingStarted.Rmdusingknitr::rmarkdown

Last update: 2023-05-03
Started: 2023-05-03

Running Achilles on Your CDM
Introduction | General Approach | SQL Only Mode | Logging | Verbose Mode | Preparation for running Achilles | Multi-Threaded vs Single-Threaded | Achilles Parameters (Both Modes) | Staging Table Prefix | Source Name | Create Table | Limiting the Analyses | Cost Analyses | Small Cell Count | Drop Scratch Tables | Create Indices | Return Value | Running Achilles: Single-Threaded Mode | Running Achilles: Multi-Threaded Mode | Post-Processing | Creating Indices | Dropping All Staging Tables (Multi-threaded only) | Acknowledgments
Rendered fromRunningAchilles.Rmdusingknitr::rmarkdown

Last update: 2023-05-03
Started: 2023-05-03

Readme and manuals

Help Manual

Help pageTopics
achillesachilles
Create indiciescreateIndices
createTimeSeriescreateTimeSeries
Drop all possible scratch tablesdropAllScratchTables
exportConditionEraToJsonexportConditionEraToJson
exportConditionToJsonexportConditionToJson
exportDashboardToJsonexportDashboardToJson
exportDataDensityToJsonexportDataDensityToJson
exportDeathToJsonexportDeathToJson
exportDrugEraToJsonexportDrugEraToJson
exportDrugToJsonexportDrugToJson
exportMeasurementToJsonexportMeasurementToJson
exportMetaToJsonexportMetaToJson
exportObservationPeriodToJsonexportObservationPeriodToJson
exportObservationToJsonexportObservationToJson
exportPerformanceToJson exportPerformanceToJsonexportPerformanceToJson
exportPersonToJsonexportPersonToJson
exportProcedureToJsonexportProcedureToJson
exportResultsToCSVexportResultsToCSV
exportToAresexportToAres
exportToJsonexportToJson
exportVisitDetailToJsonexportVisitDetailToJson
exportVisitToJsonexportVisitToJson
Get all analysis detailsgetAnalysisDetails
Get the seasonality score for a given monthly time seriesgetSeasonalityScore
getTemporalDatagetTemporalData
Determine whether or not a time series is stationary in the meanisStationary
listMissingAnalyseslistMissingAnalyses
Optimize atlas cacheoptimizeAtlasCache
performTemporalCharacterizationperformTemporalCharacterization
runMissingAnalysesrunMissingAnalyses
showReportTypesshowReportTypes
For a monhtly time series, compute sum and proportion by month across all yearssumAcrossYears
Trim a monthly time series object to so that partial years are removedtsCompleteYears