Package: Rdiagnosislist 1.2

Anoop Shah

Rdiagnosislist: Manipulate SNOMED CT Diagnosis Lists

Functions and methods for manipulating 'SNOMED CT' concepts. The package contains functions for loading the 'SNOMED CT' release into a convenient R environment, selecting 'SNOMED CT' concepts using regular expressions, and navigating the 'SNOMED CT' ontology. It provides the 'SNOMEDconcept' S3 class for a vector of 'SNOMED CT' concepts (stored as 64-bit integers) and the 'SNOMEDcodelist' S3 class for a table of concepts IDs with descriptions. For more information about 'SNOMED CT' visit <https://www.snomed.org/>.

Authors:Anoop Shah [aut, cre]

Rdiagnosislist_1.2.tar.gz
Rdiagnosislist_1.2.tar.gz(r-4.5-noble)Rdiagnosislist_1.2.tar.gz(r-4.4-noble)
Rdiagnosislist_1.2.tgz(r-4.4-emscripten)Rdiagnosislist_1.2.tgz(r-4.3-emscripten)
Rdiagnosislist.pdf |Rdiagnosislist.html✨
Rdiagnosislist/json (API)
NEWS

# Install 'Rdiagnosislist' in R:
install.packages('Rdiagnosislist', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:
  • CONCEPT - Sample concept table from SNOMED CT dictionary
  • DESCRIPTION - Sample description table from SNOMED CT dictionary
  • EXTENDEDMAP - Sample extended map table from SNOMED CT dictionary
  • HISTORY - Sample history substitution table from SNOMED CT dictionary
  • QUERY - Sample query table from SNOMED CT dictionary
  • READMAPS - Sample mappings from Read to SNOMED CT
  • REFSET - Sample refset table from SNOMED CT dictionary
  • RELATIONSHIP - Sample relationship tables from SNOMED CT dictionary
  • SIMPLEMAP - Sample SIMPLE map table from SNOMED CT dictionary
  • STATEDRELATIONSHIP - Sample relationship tables from SNOMED CT dictionary

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

33 exports 1 stars 0.00 score 3 dependencies 14 scripts 282 downloads

Last updated 1 years agofrom:0c4c98a20e. Checks:OK: 1 NOTE: 1. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 17 2024
R-4.5-linuxNOTESep 17 2024

Exports:addInactiveConceptsancestorsas.SNOMEDcodelistas.SNOMEDconceptattrConceptchildrencontractSNOMEDdescendantsdescriptionexpandSNOMEDexportexportSNOMEDenvirgetMapsgetRefsetgetSNOMEDhasAttributeshtmlCodelistHierarchyinactiveIncludedintersectis.SNOMEDcodelistis.SNOMEDconceptloadREADMAPSloadSNOMEDparentsrelatedConceptssampleSNOMEDsemanticTypesetdiffshowCodelistHierarchysimplifySNOMEDcodelistSNOMEDconceptunion

Dependencies:bitbit64data.table

Converting and creating codelists

Anoop Shah

Rendered fromconvertingAndCreatingCodelists.Rmdusingknitr::rmarkdownon Sep 17 2024.

Last update: 2023-04-18
Started: 2023-04-18

Using Rdiagnosislist functions with custom hierarchies

Anoop Shah

Rendered fromcustomHierarchy.Rmdusingknitr::rmarkdownon Sep 17 2024.

Last update: 2023-04-18
Started: 2023-04-18

Using SNOMED dictionaries and codelists

Anoop Shah

Rendered fromSNOMEDcodelists.Rmdusingknitr::rmarkdownon Sep 17 2024.

Last update: 2023-04-18
Started: 2021-07-19

Readme and manuals

Help Manual

Help pageTopics
Add inactive concepts to a SNOMEDcodelist or SNOMEDconcept vectoraddInactiveConcepts
Returns the SNOMED CT concept IDs for a set of termsas.data.frame.SNOMEDconcept as.integer64.SNOMEDconcept as.SNOMEDconcept SNOMEDconcept
Retrieve all attributes of a set of SNOMED CT conceptsattrConcept
Concatenate vectors of SNOMED CT conceptsc.SNOMEDconcept
Create indices for tables in a SNOMED environmentcreateSNOMEDindices
Obtain descriptions for a set of SNOMED CT termsdescription
Expand or contract a SNOMEDcodelistcontractSNOMED expandSNOMED showCodelistHierarchy
Export a SNOMEDcodelistexport export.SNOMEDcodelist
Export a SNOMED environment to a folderexportSNOMEDenvir
Obtain Read 2, CTV3, ICD-10 and OPCS4 maps for SNOMED CT conceptsgetMaps
Retrieves a Refset from the REFSET tablegetRefset
Retrieves SNOMED CT dictionary from the global environmentgetSNOMED
Whether SNOMED CT concepts have particular attributeshasAttributes
Sample history substitution table from SNOMED CT dictionaryHISTORY
Export a SNOMEDcodelist hierarchy to HTMLhtmlCodelistHierarchy
Check if inactive terms are included in SNOMED CT dictionaryinactiveIncluded
Check if an object is a SNOMEDcodelistis.SNOMEDcodelist
Check if an object is a SNOMEDconceptis.SNOMEDconcept
Load mappings from Read to SNOMED CT into an R data.tableloadREADMAPS
Load SNOMED CT files from a folder(s) into R data.table objectsloadSNOMED
Ancestors and descendants of SNOMED CT conceptsancestors children descendants parents
Display a SNOMEDcodelist on screenprint.SNOMEDcodelist
Display a SNOMEDconcept object with descriptionsprint.SNOMEDconcept
Sample query table from SNOMED CT dictionaryQUERY
Rdiagnosislist: A package for manipulating SNOMED CT diagnosis listsRdiagnosislist
Sample mappings from Read to SNOMED CTREADMAPS
Obtain related concepts for a set of SNOMED CT conceptsrelatedConcepts
Sample SNOMED CT dictionarysampleSNOMED
Retrieves semantic types using the text 'tag' in the descriptionsemanticType
Retrieves closest single ancestor within a given set of SNOMED CT conceptssimplify
Sample concept table from SNOMED CT dictionaryCONCEPT SNOMED_CONCEPT
Sample description table from SNOMED CT dictionaryDESCRIPTION SNOMED_DESCRIPTION
Sample extended map table from SNOMED CT dictionaryEXTENDEDMAP SNOMED_EXTENDEDMAP
Sample refset table from SNOMED CT dictionaryREFSET SNOMED_REFSET
Sample relationship tables from SNOMED CT dictionaryRELATIONSHIP SNOMED_RELATIONSHIP SNOMED_STATEDRELATIONSHIP STATEDRELATIONSHIP
Sample SIMPLE map table from SNOMED CT dictionarySIMPLEMAP SNOMED_SIMPLEMAP
Convert a data.frame to a SNOMEDcodelist objectas.SNOMEDcodelist SNOMEDcodelist
Set operations for SNOMEDconcept vectorsintersect intersect.default intersect.SNOMEDconcept setdiff setdiff.default setdiff.SNOMEDconcept union union.default union.SNOMEDconcept
Unique vector of SNOMED CT conceptsunique.SNOMEDconcept