Olga V. Patterson

Olga V. Patterson, Brett South, T. Elizabeth Workman et al.

Natural language processing (NLP) is a common method for supplying data to clinical research and decision making by extracting information from electronic medical records. Numerous textbooks and tutorials describe specific algorithms and applications for text processing, yet algorithmic knowledge is only one ingredient of a successful NLP project. Drawing on the available literature, this paper presents a stepwise approach that applies the Systems Development Life Cycle (SDLC) to projects that rely on data extraction through language processing.

Hannah Eyre, Alec B Chapman, Kelly S Peterson et al.

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.