cTakes protocols

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cTakes specifications

Information


Unique identifier OMICS_17680
Name cTakes
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
License Apache License version 2.0
Computer skills Medium
Version 4.0.0
Stability Stable
Requirements
Oracle Java, Apache Subversion, Apache Maven
Source code URL http://ctakes.apache.org/downloads.cgi
Maintained Yes

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Documentation


cTakes in pipelines

 (2)
2017
PMCID: 5635478
PMID: 29090077
DOI: 10.1155/2017/7575280

[…] can be referred through umls concept unique identifier (cui) (https://www.nlm.nih.gov). many researchers endeavor to deal with medical ner and normalization by developing computational tools such as ctakes (http://ctakes.apache.org), freeling-med, metamap (https://metamap.nlm.nih.gov), medlee (http://www.medlingmap.org/taxonomy/term/80), tmchem […]

2015
PMCID: 4301805
PMID: 25607983
DOI: 10.1371/journal.pone.0116040

[…] using four established concept recognition systems and a standard method to build a ssc for phenotype-related concepts reaches in the best case a f1-measure of 33% if only ncbo annotator and ctakes are used for annotations. even if four systems are combined, the obtained ssc is limited to mostly annotations of these two concept recognition systems. however, the best precision is achieved […]


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cTakes in publications

 (58)
PMCID: 5813927
PMID: 29447188
DOI: 10.1371/journal.pone.0192360

[…] and outperform approaches to classification problems in other domains [–]. we compare cnns to entity extraction systems using the mayo clinical text analysis and knowledge extraction system (ctakes) [], and other nlp methods such as logistic regression models using n-gram features. using a corpus of 1,610 discharge summaries that were annotated for ten different phenotypes, we show […]

PMCID: 5709846
PMID: 29191207
DOI: 10.1186/s12911-017-0556-8

[…] and developed medical subdomain classifiers based on the content of the note., we constructed the pipeline using the clinical nlp system, clinical text analysis and knowledge extraction system (ctakes), the unified medical language system (umls) metathesaurus, semantic network, and learning algorithms to extract features from two datasets — clinical notes from integrating data for analysis, […]

PMCID: 5691355
PMID: 29220478
DOI: 10.1093/database/bax088

[…] users to configure the processing of documents according to their specific objectives and goals, providing very rich and complete information about concepts., the second tool used in this example is ctakes (), an open-source nlp system for information extraction from free text of electronic medical records. the system was designed to semantically extract information to support heterogeneous […]

PMCID: 5635478
PMID: 29090077
DOI: 10.1155/2017/7575280

[…] can be referred through umls concept unique identifier (cui) (https://www.nlm.nih.gov). many researchers endeavor to deal with medical ner and normalization by developing computational tools such as ctakes (http://ctakes.apache.org), freeling-med, metamap (https://metamap.nlm.nih.gov), medlee (http://www.medlingmap.org/taxonomy/term/80), tmchem […]

PMCID: 5594525
PMID: 28893314
DOI: 10.1186/s13326-017-0135-z

[…] actionable way. within the context of the strategic health it advanced research project (sharpn), [] and [] developed a higher-level formal (owl) clinical ehr representation (implemented in ctakes []). this representation is based on the low-level annotation framework explained in []. the sharpn normalized data has been thus converted automatically to the resource description framework […]


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