Versions Compared

Old Version 1

changes.mady.by.user Pei Chen

Saved on

compared with

New Version Current

changes.mady.by.user Jessica Glover

Saved on

Key

  • This line was added.
  • This line was removed.
  • Formatting was changed.
Comment: added links to prebuilt 2015 dictionaries, and dictionary tools in sandbox.

...

  • An RxNorm_index database (a Lucene index): Contains drug names from RxNorm.
  • The OrangeBook: If you are not using the drug NER pipeline, the Orange Book is used to filter out what it found in RxNorm so that only things in both RxNorm and Orange Book are annotated. If you use Drug NER, Orange Book filtering is bypassed.
  • A UMLS database (using two hsqldb tables): Contains terms for anatomical sites, procedures, signs/symptoms, and disorders/diseases from SNOMED-CT, NCI Thesaurus, MeSH, and ICD-9 (umls_ms_2011ab) which have been tokenized by cTAKES.
  • The full LVG: From the lexical tools provided by the NLM for word normalization. Used to match similar words, for example the plural and singular forms of a word.

 

Building Your Own Dictionaries

The UMLS dictionaries within the ctakes-resources archive might not match your underlying data completely. You might require other local terms, etc. To install create customized dictionaries for RxNorm, SNOMED-CT, or other vocabularies that are available through the UMLS, see the following posts on the cTAKES forums:

...

you may use one of the dictionary tools currently in development (dictionary-gui and dictionarytool), that can be found in the cTAKES sandbox.

Obtaining Models

As of Apache cTAKES 3.1, the models needed to run cTAKES are included with the convenience binaries.

...