Eosinophilics: Extract the Prague score

In ropensci/EndoMineR: Functions to mine endoscopic and associated pathology datasets

Extract the Prague score

Description

The aim is to extract a C and M stage (Prague score) for Barrett's samples. This is done using a regex where C and M stages are explicitly mentioned in the free text Specfically it extracts the Prague score

Usage

Eosinophilics(dataframe, findings, histol, IndicationsFroExamination)

Arguments

dataframe	dataframe with column of interest
findings	column of interest
histol	second column of interest
IndicationsFroExamination	second column of interest

Examples

# Firstly relevant columns are extrapolated from the
# Mypath demo dataset. These functions are all part of Histology data
# cleaning as part of the package.
# Mypath demo dataset. These functions are all part of Histology data
# cleaning as part of the package.
v <- Mypath
v$NumBx <- HistolNumbOfBx(v$Macroscopicdescription, "specimen")
v$BxSize <- HistolBxSize(v$Macroscopicdescription)
# The histology is then merged with the Endoscopy dataset. The merge occurs
# according to date and Hospital number
v <- Endomerge2(
  Myendo, "Dateofprocedure", "HospitalNumber", v, "Dateofprocedure",
  "HospitalNumber"
)


aa <- Eosinophilics(v, "Findings", "Histology","Indications")

ropensci/EndoMineR documentation built on Sept. 3, 2024, 7:12 a.m.