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ABNER | An open source tool for automatically tagging genes, proteins and other entity names in text

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An open source software tool for molecular biology text mining. At its core is a machine learning system using conditional random fields with a variety of orthographic and contextual features. The latest version is 1.5, which has an intuitive graphical interface and includes two modules for tagging entities (e.g. protein and cell line) trained on standard corpora, for which performance is roughly state of the art.

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ABNER forum

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ABNER classification

ABNER specifications

Unique identifier:
OMICS_01168
Software type:
Package/Module
Restrictions to use:
None
Computer skills:
Medium
Stability:
Stable
Name:
A Biomedical Named Entity Recognizer
Interface:
Graphical user interface
Operating system:
Unix/Linux, Mac OS, Windows
Version:
1.5
Maintained:
Yes

ABNER distribution

versioning

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No versioning.

ABNER support

Maintainer

  • Burr Settles <>

Credits

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Publications

Institution(s)

Department of Computer Sciences and Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison Madison, WI, USA

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