Sepsis can present in many different ways. Many professionals recognize sepsis’ presentation, but the literature is undecided when it comes to an exact clinical definition. The purpose of this package is to provide functions in order to make the process of identifying and analyzing sepsis patients easier. The assess_organ function is the main function of this package; it allows you to assess organ failure using one of the three common organ failure scores, SIRS, SOFA, and qSOFA. Currently, all score vital thresholds are based off the MD Calc Website. Please view the description file to see MD Calc references for individual organ failure scores. This package also has a few helper functions including find_bx_window and find_qad, from the CDC (Centers for Disease and Control) definition of Sepsis. This package is not in anyway supported by the CDC or Emory Healthcare.
Installation
Get the development version from GitHub with:
# install.packages("devtools")
devtools::install_github("trentgillin/Sepsis")Example
This is a basic example which shows you how to solve a common problem:
library(SepsisR)
assess_organ(sirs_data, method = "SIRS",
patientid = Encounter,
time = Service_Timestamp,
vitals = c("RR" = "RR",
"WBC" = "Wbc",
"Temperature" = "Temperature",
"HR" = "HR"))
#> # A tibble: 9 × 7
#> Encounter Service_Timestamp HR Temperature RR Wbc sirs_total
#> <dbl> <dttm> <dbl> <dbl> <dbl> <dbl> <dbl>
#> 1 1 2018-12-11 08:00:00 120 31 20 5000 3
#> 2 1 2018-12-11 08:30:00 72 31 20 5000 3
#> 3 1 2018-12-11 09:00:00 85 33 21 5000 3
#> 4 1 2018-12-11 09:30:00 90 31 22 5000 3
#> 5 1 2018-12-11 10:00:00 111 31 20 5000 3
#> 6 1 2018-12-11 10:30:00 64 32 20 5000 3
#> 7 1 2018-12-11 11:00:00 70 38 20 5000 3
#> 8 1 2018-12-11 11:30:00 75 33 20 5000 3
#> 9 1 2018-12-11 12:00:00 81 31 20 5000 3
