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mLAPS

mlaps.Rd

mLAPS

Usage

mlaps(ipadmdad, lab, hours_after_admission = 0, component_wise = FALSE)

Arguments

ipadmdad

(data.frame)
Table equivalent to a subset of the admdad table defined in the GEMINI Data Repository Dictionary.

lab

(data.table, data.frame)
Table equivalent to a subset of the lab table defined in the GEMINI Data Repository Dictionary.

hours_after_admission

(numeric)
Consider lab tests collected up to hours_after_admission hours after inpatient admission in the calculation. Default hours_after_admission is set to 0, where only lab tests collected at Emergency Department (before inpatient admission) are considered in mLAPS calculation. Since not all encounters are admitted through Emergency Department, depending on research question, it can be relevant to consider lab tests collected in early inpatient admission. Typically, hours_after_admission can be set to 24 to consider any lab tests collected at Emergency Department and 24 hours after inpatient admission.

component_wise

(logical)
Does not aggregate the score and instead outputs for each LAPS component (test) its contribution to the overall score.

Value

(data.frame)
If componentwise == TRUE: genc_id (numeric),
test_type_mapped_omop (character),
mlaps (numeric) max score for this test.

If componentwise == FALSE: genc_id (numeric),
mlaps (numeric) sum of max scores for each relevant test for this encounter.

Details

Modified Laboratory based Acute Physiology Score (mLAPS) uses 12 lab test values from 11 unique lab tests. In this modified version, troponin tests are not considered in the mLAPS calculation.

Note

When an encounter has multiple recorded lab results for a given "LAPS-relevant" test, the test result which results in the worst possible LAPS contribution is taken for a conservative estimate.

Patients without entries in the lab table within hours_of_admission are not returned. For those encounters which were not returned, it may be reasonable to impute their LAPS score with zero if lab data was in principle available for their site and time period. If lab data was unavailable, it might be more accurate to assign the LAPS score for these encounters as NA. In general it is recommended to take care and be intentional when imputing LAPS scores.

References

When the function is used, please cite the following:

  • Escobar G, et al. Med Care, 2008. https://doi.org/10.1097/MLR.0b013e3181589bb6

  • Roberts SB, et al. J Gen Intern Med, 2023. https://doi.org/10.1007/s11606-023-08245-w

  • Roberts SB, et al. medRxiv (preprint), 2023. https://doi.org/10.1101/2023.01.06.23284273