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The task of recognizing and identifying species names in biomedical literature has recently been regarded as critical for a number of applications in text and data mining, including gene name recognition, species-specific document retrieval, and semantic enrichment of biomedical articles. Results: In this paper we describe an open-source species name recognition and normalization software system, LINNAEUS, and evaluate its performance relative to several automatically generated biomedicaldoi:10.1186/1471-2105-11-85 pmid:20149233 pmcid:PMC2836304 fatcat:eru576q7u5befdadlzwjhw3mqi