CALIBERcodelists: Generate ICD10, Read and OPCS codelists

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Facilitates the generation, documentation and comparision of codelists for identifying diagnoses, procedures, investigations and other events recorded for patients in CALIBER electronic health record data. The CALIBER programme is funded by the Wellcome Trust (086091/Z/08/Z) and the National Institute for Health Research (NIHR) under its Programme Grants for Applied Research programme (RP-PG-0407-10314). The author is supported by a Wellcome Trust Clinical Research Training Fellowship (0938/30/Z/10/Z).

Author
Anoop Shah [aut, cre], Harry Hemingway [ths], Aroon Hingorani [ths], Owen Nicholas [ths], Spiros Denaxas [ctb], Harriet Forbes [ctb], Emily Herrett [ctb], Katherine Morley [ctb], Mar Pujades [ctb], Joshua Wallace [ctb]
Date of publication
2015-05-28 11:03:11
Maintainer
Anoop Shah <anoop@doctors.org.uk>
License
GPL-3
Version
0.2-9

View on R-Forge

Man pages

assigncat
Assign selected terms to a category
browsedict
Browse a selection, codelist or the master dictionary in a...
CALIBERcodelists-package
Generate ICD, Read and OPCS codelists
categories
Get and set categories table for the master dictionary
codelist
codelist: S3 class for lists of Read, OPCS or ICD-10 codes
codematch
Select ICD10, OPCS or Read codes matching a particular...
compare
Compare two codelists
contractCodelist
Contract and expand ICD-10 codelists according to the...
convert
Convert codelists between ICD-10, Read and OPCS
decode
Show term descriptions for ICD, OPCS or Read codes
DICT
The master dictionary containing the current selection of...
dictis
Which terms are in a particular dictionary
DICTMAPS
Mapping between OPCS / ICD-10 and Read terms
explode
Show terms not included in the selection but sharing the...
explore
Manage codelists and create a new codelist interactively
export
Export the codelists to the definitive .csv format or .dta...
GEM
General Equivalence Mappings from ICD-9-CM to ICD-10-CM and...
getCodelist
Find and import a codelist from a folder
loadDicts
Script to replace the source dictionaries used by...
logic
Logical operators for selection objects
logicSelection
Boolean operators for the S3 selection class
medcodeis
Select Read codes with particular medcode(s)
merge.codelist
Merge two codelists
META
Metadata for the master dictionary, stored in a data.table
print.selection
Prints the codes in a selection
process
Process an R Markdown file
PRODDICT
CPRD (GPRD) Product dictionary
selection
selection: S3 class for a list of Read, OPCS and/or ICD-10...
setdictionary
Get and set which dictionary or dictionaries to use
setMetadata
Set metadata for a codelist or the master dictionary
showhtml
Show the selected and excluded terms in HTML
stringFunctions
String functions
termhas
Select terms which contain a particular string

Files in this package

CALIBERcodelists/DESCRIPTION
CALIBERcodelists/NAMESPACE
CALIBERcodelists/NEWS
CALIBERcodelists/R
CALIBERcodelists/R/assigncat.R
CALIBERcodelists/R/browsedict.R
CALIBERcodelists/R/categories.R
CALIBERcodelists/R/codelist.R
CALIBERcodelists/R/codematch.R
CALIBERcodelists/R/compare.R
CALIBERcodelists/R/contractCodelist.R
CALIBERcodelists/R/convert.R
CALIBERcodelists/R/decode.R
CALIBERcodelists/R/dictis.R
CALIBERcodelists/R/explode.R
CALIBERcodelists/R/exploreCodes.R
CALIBERcodelists/R/export.R
CALIBERcodelists/R/getCodelist.R
CALIBERcodelists/R/importCSVcodelist.R
CALIBERcodelists/R/loading.R
CALIBERcodelists/R/logic.R
CALIBERcodelists/R/medcodeis.R
CALIBERcodelists/R/merge.R
CALIBERcodelists/R/process.R
CALIBERcodelists/R/selection.R
CALIBERcodelists/R/setMetadata.R
CALIBERcodelists/R/setdictionary.R
CALIBERcodelists/R/showhtml.R
CALIBERcodelists/R/stringFunctions.R
CALIBERcodelists/R/sysdata.R
CALIBERcodelists/R/sysdata.rda
CALIBERcodelists/R/termhas.R
CALIBERcodelists/R/textToDate.R
CALIBERcodelists/demo
CALIBERcodelists/demo/00Index
CALIBERcodelists/demo/explore.R
CALIBERcodelists/demo/loadnewdicts.R
CALIBERcodelists/demo/makecodelist.R
CALIBERcodelists/inst
CALIBERcodelists/inst/doc
CALIBERcodelists/inst/doc/index.html
CALIBERcodelists/inst/doc/userguide.pdf
CALIBERcodelists/man
CALIBERcodelists/man/CALIBERcodelists-package.Rd
CALIBERcodelists/man/DICT.Rd
CALIBERcodelists/man/DICTMAPS.Rd
CALIBERcodelists/man/GEM.Rd
CALIBERcodelists/man/META.Rd
CALIBERcodelists/man/PRODDICT.Rd
CALIBERcodelists/man/assigncat.Rd
CALIBERcodelists/man/browsedict.Rd
CALIBERcodelists/man/categories.Rd
CALIBERcodelists/man/codelist.Rd
CALIBERcodelists/man/codematch.Rd
CALIBERcodelists/man/compare.Rd
CALIBERcodelists/man/contractCodelist.Rd
CALIBERcodelists/man/convert.Rd
CALIBERcodelists/man/decode.Rd
CALIBERcodelists/man/dictis.Rd
CALIBERcodelists/man/explode.Rd
CALIBERcodelists/man/explore.Rd
CALIBERcodelists/man/export.Rd
CALIBERcodelists/man/getCodelist.Rd
CALIBERcodelists/man/loadDicts.Rd
CALIBERcodelists/man/logic.Rd
CALIBERcodelists/man/logicSelection.Rd
CALIBERcodelists/man/medcodeis.Rd
CALIBERcodelists/man/merge.codelist.Rd
CALIBERcodelists/man/print.selection.Rd
CALIBERcodelists/man/process.Rd
CALIBERcodelists/man/selection.Rd
CALIBERcodelists/man/setMetadata.Rd
CALIBERcodelists/man/setdictionary.Rd
CALIBERcodelists/man/showhtml.Rd
CALIBERcodelists/man/stringFunctions.Rd
CALIBERcodelists/man/termhas.Rd