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@Note | A workbench for biomedical text mining

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A platform for Biomedical Text Mining (BioTM) that aims at the effective translation of the advances between three distinct classes of users: biologists, text miners and software developers. Its main functional contributions are the ability to process abstracts and full-texts; an information retrieval module enabling PubMed search and journal crawling; a pre-processing module with PDF-to-text conversion, tokenisation and stopword removal; a semantic annotation schema; a lexicon-based annotator; a user-friendly annotation view that allows to correct annotations and a Text Mining Module supporting dataset preparation and algorithm evaluation.

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@Note classification

@Note specifications

Unique identifier:
OMICS_01167
Restrictions to use:
None
Database management system:
MySQL
Computer skills:
Basic
Stability:
Stable
Maintained:
Yes
Interface:
Web user interface
Programming languages:
Java, Perl
License:
GNU General Public License version 2.0
Version:
2.0
Requirements:
Strawberry Perl, Xpdf, pdftotext, MySQL

@Note support

Documentation

Credits

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Publications

Institution(s)

Department of Informatics/CCTC, University of Minho, Campus de Gualtar, Braga, Portugal

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