library(pander) library(EndoMineR) knitr::opts_chunk$set(echo = TRUE)
knitr::opts_chunk$set( warning=FALSE, message=FALSE)
It is envisaged that different users will start at different points of their data preparation. THis section is intended to explain the fake data I have created so the type of data used for the examples can be better understood.
There are several data files used. These are detailed below
A dataset containing fake upper GI endoscopy reports. The report field is provided as a whole report without any fields having been already extracted. There are 2000 rows
A dataset containing fake upper GI pathology reports. The report field is provided as a whole report without any fields having been already extracted. There are 2000 rows
This has been extracted using the Extractor method as follows from the raw text within Mypath:
mywords <- c("OGDReportWhole","HospitalNumber","PatientName", "GeneralPractitioner","Dateofprocedure","Endoscopist", "Secondendoscopist","Medications","Instrument","ExtentofExam", "Indications","ProcedurePerformed","Findings") Extractor(TheOGDReportFinal,"OGDReportWhole",mywords)
This has been extracted using the Extractor method as follows from the raw text within Mypath:
mywords<-c("HospitalNumber","PatientName","DOB","GeneralPractitioner", "Dateofprocedure","ClinicalDetails","Macroscopicdescription", "Histology","Diagnosis") Extractor(PathDataFrameFinal,"PathReportWhole",mywords)
The original dataset has also been added as "PathReportWhole",
A dataset containing fake lower GI endoscopy reports. The report field is provided as a whole report without any fields having been already extracted. There are 2000 rows
A dataset containing fake lower GI pathology reports. The report field is provided as a whole report without any fields having been already extracted. There are 2000 rows.
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