Ctakes with the clinical pipeline aggregate plaintext processor fast with umls wrapped around dirk weissenborns restful interface works great with python. I set it up on a virtualbox and query it like a stand alone service. This seems to me the best way to integrate in another language especially python.
On March 8, 2017 at 14:34:44 MST, Kevin B. Cohen <[email protected]> wrote:Alden, if you find such a beginner's guide and could distribute its whereabouts to the rest of us, it would be great. Kevin On Tue, Mar 7, 2017 at 6:39 PM, Alden Gordon <[email protected]> wrote:Does anyone have a beginners guide to applying cTAKES named entity recognition to a corpus? I have used the aggregate plain text processor with the collection process engine on my data (the text of a PCP - specialist curbside consult), but it seems to only capture capitalization and part of speech. I would like to capture negation and assign relevant words to SNOMED concepts. Thank you in advance for any general guidance. Additionally, if anyone has any advice on using cTAKES with python, I would appreciate the help Best, Alden -- Alden Gordon Analytics Lead | 860.402.6572 | [email protected] Visit Care Without Constraints to learn how eConsults are removing barriers to care. -- Kevin Bretonnel Cohen, PhDDirector, Biomedical Text Mining GroupComputational Bioscience Program, U. Colorado School of Medicine Chair in Natural Language Processing for the Biomedical Domain Université Paris-Saclay, LIMSI-CNRS 303-916-2417http://compbio.ucdenver.edu/Hunter_lab/Cohen
