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growthcleanr: a data cleaner for anthropometric measurements

Source: R/growthcleanr-package.R
growthcleanr-package.Rd

growthcleanr flags implausible anthropometric (height, weight, and head circumference) measurements in longitudinal datasets, such as those from electronic health records. It also identifies other measurements that should often be excluded from analyses.

Getting started

The main function is cleangrowth. Pass it a data frame with one row per measurement and columns subjid, param, agedays, sex, and measurement (plus an optional per-row id). Semi-wide and wide layouts, alternate column names, and date-of-birth / visit-date ages are also supported. growthcleanr will not delete or edit data: it returns your data with an added exclude column labeling each row "Include" or an exclusion code naming why it recommends exclusion.

The function growthcleanr_app opens a Shiny app that runs growthcleanr without writing code. A command-line driver is documented in vignette("command-line").

New to growthcleanr? Start with vignette("new-start-here"). See vignette("output") for more information including the returned columns and vignette("configuration") for the full index of arguments and thresholds.

See also

Useful links:

Author

Maintainer: Carrie Daymont cdaymont@pennstatehealth.psu.edu [copyright holder]

Authors:

  • Robert W Grundmeier

  • Jeffrey Miller

  • Diego Campos

  • Dan Chudnov

  • Hannah De los Santos

  • David Freedman

  • Wen Hu

  • Chris Penney

Other contributors:

  • Jesse Anderson [contributor]

  • Matt Boyas [contributor]

  • Lusha Cao [contributor]

  • Sara Couture [contributor]

  • Prashila Dullabh [contributor]

  • Jess Fernandez [contributor]

  • Andrew Gregorowicz [contributor]

  • Lyudmila Kompaniyets [contributor]

  • A Russell Localio [contributor]

  • Ruth Nwefo [contributor]

  • Max Olivier [contributor]

  • Samantha Pierce [contributor]

  • Michelle E Ross [contributor]

  • Steffani Silva [contributor]

  • Mithuna Srinivasan [contributor]

  • Marissa Sucosky [contributor]

  • Jennifer Wiltz [contributor]

  • Hanzhe Zhang [contributor]

  • Alexander G Fiks [scientific advisor]

  • Richard C (Mort) Wasserman [scientific advisor]

  • Andreas Achilleos [scientific advisor]

  • Nabeel Akhtar [scientific advisor]

  • Sarah Akhtar [scientific advisor]

  • Wilbert Beachy [scientific advisor]

  • Colin Bridgeman [scientific advisor]

  • Jessica Butts [scientific advisor]

  • Emily Despeaux [scientific advisor]

  • Christine Irvin [scientific advisor]

  • Madiha Jamil [scientific advisor]

  • Robert Marquis [scientific advisor]

  • Abigail Nelson [scientific advisor]

  • Sheila Nguyen [scientific advisor]

  • Taraneh Soleymani [scientific advisor]

  • Ronald Williams [scientific advisor]