Launching into clinical space with medspaCy: a new clinical text processing toolkit in Python.
Journal
AMIA ... Annual Symposium proceedings. AMIA Symposium
ISSN: 1942-597X
Titre abrégé: AMIA Annu Symp Proc
Pays: United States
ID NLM: 101209213
Informations de publication
Date de publication:
2021
2021
Historique:
entrez:
21
3
2022
pubmed:
22
3
2022
medline:
12
4
2022
Statut:
epublish
Résumé
Despite impressive success of machine learning algorithms in clinical natural language processing (cNLP), rule-based approaches still have a prominent role. In this paper, we introduce medspaCy, an extensible, open-source cNLP library based on spaCy framework that allows flexible integration of rule-based and machine learning-based algorithms adapted to clinical text. MedspaCy includes a variety of components that meet common cNLP needs such as context analysis and mapping to standard terminologies. By utilizing spaCy's clear and easy-to-use conventions, medspaCy enables development of custom pipelines that integrate easily with other spaCy-based modules. Our toolkit includes several core components and facilitates rapid development of pipelines for clinical text.
Types de publication
Journal Article
Research Support, U.S. Gov't, Non-P.H.S.
Langues
eng
Sous-ensembles de citation
IM
Pagination
438-447Informations de copyright
©2021 AMIA - All rights reserved.
Références
J Am Med Inform Assoc. 2018 Mar 1;25(3):331-336
pubmed: 29186491
J Am Med Inform Assoc. 2013 Sep-Oct;20(5):806-13
pubmed: 23564629
J Am Med Inform Assoc. 2021 Mar 1;28(3):504-515
pubmed: 33319904
Arch Pathol Lab Med. 2008 Oct;132(10):1608-16
pubmed: 18834219
Nucleic Acids Res. 2004 Jan 1;32(Database issue):D267-70
pubmed: 14681409
J Biomed Inform. 2020 Sep;109:103526
pubmed: 32768446
JMIR Med Inform. 2019 Apr 27;7(2):e12239
pubmed: 31066697
JAMA Netw Open. 2021 Feb 1;4(2):e2037047
pubmed: 33566108
Drug Saf. 2019 Jan;42(1):147-156
pubmed: 30649737
Sci Data. 2016 May 24;3:160035
pubmed: 27219127
BMC Med Inform Decis Mak. 2006 Jul 26;6:30
pubmed: 16872495
J Biomed Semantics. 2019 Apr 11;10(1):6
pubmed: 30975223
J Am Med Inform Assoc. 2016 Sep;23(5):1007-15
pubmed: 26911811
J Biomed Inform. 2009 Oct;42(5):839-51
pubmed: 19435614
AMIA Annu Symp Proc. 2008 Nov 06;:156-60
pubmed: 18999303
Proc AMIA Symp. 2001;:17-21
pubmed: 11825149
Acad Emerg Med. 2004 Nov;11(11):1170-6
pubmed: 15528581
J Biomed Inform. 2011 Oct;44(5):728-37
pubmed: 21459155
J Am Med Inform Assoc. 2017 Jul 1;24(4):841-844
pubmed: 28130331
J Am Med Inform Assoc. 2020 Jan 1;27(1):3-12
pubmed: 31584655
J Am Med Inform Assoc. 2010 Sep-Oct;17(5):507-13
pubmed: 20819853
AMIA Annu Symp Proc. 2006;:364-8
pubmed: 17238364
AMIA Annu Symp Proc. 2014 Nov 14;2014:589-98
pubmed: 25954364