Software

Text Mining Tools

Part-of-speech (POS) taggers

Parsers

Named entities/terms

  • AnatomyTagger — an open-source entity mention tagger for anatomical entities
  • Named Entity Recognizer — Part of the GENIA Tagger
  • NEMine —  Recognizes gene/protein names in text.
  • Yeast MetaboliNER —  Recognizes yeast metabolite names in text.
  • ACELA — Tool for efficient annotation of named entitites
  • Smart dictionary lookup — machine learning-based gene/protein name lookup
  • Smart Dictionary Lookup Tool Web Service — Looks up term variations of a given gene/protein name based on an automatically trained similarity measure
  • Term Normalization Tool — Normalises terms with string rewriting rules automatically generated based on a dictionary.
  • DECA — A species disambiguation system for biological named entities
  • RF-TermAlign — a bilingual dictionary extraction tool that uses a Random Forest method to learn string similarity of terms between a source and target language.

Other tools