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Neji specifications


Unique identifier OMICS_04830
Name Neji
Software type Package/Module
Interface Graphical user interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Programming languages Java
Computer skills Medium
Stability Stable
Maintained Yes


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  • person_outline David Campos <>

Publication for Neji

Neji in publications

PMCID: 4366016
PMID: 25790125
DOI: 10.1371/journal.pone.0119091

[…] (nlp) pipelines (i.e., sentence splitting, tokenization, pos tagging, etc.) augmented with specialised cr modules (applying direct dictionary lookup or machine learning based on dictionaries)—e.g., neji []. finally, from an ontological perspective, cr systems can be split into two groups: (i) ontology-agnostic—i.e., systems designed to perform cr using any given ontology (e.g., ncbo annotator […]

PMCID: 4331697
PMID: 25810778
DOI: 10.1186/1758-2946-7-S1-S7

[…] as features for the crf model., the method applied for this work was developed on top of two frameworks: gimli [] was used for feature extraction and to train the machine learning (ml) models, and neji [] was used for pre- and post-processing tasks and as the framework for multi-threaded document annotation. figure illustrates the overall architecture and the steps performed., the system […]

PMCID: 3849280
PMID: 24063607
DOI: 10.1186/1471-2105-14-281

[…] frameworks, which are not optimized for the biomedical domain and normally require the integration of complex external libraries and/or the development of custom tools., this article presents neji, an open source framework optimized for biomedical concept recognition built around four key characteristics: modularity, scalability, speed, and usability. it integrates modules for biomedical […]

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Neji institution(s)
IEETA/DETI, University of Aveiro, Campus Universitário de Santiago, Aveiro, Portugal

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