gnTEAM | Resources / Resources

Pre-processing
- Sentence Splitter - MG; FS
- pdf-to-text conversion - DJ
- Regular expression Tester - Test your regular expression directly online.
Parsing
- Stanford
- McClosky (Constituency-tree parser) - FS
- GDep (Dependency-tree parser) - MG
POS Tagging
- POS Tagger - AD
- GENIA Tagger - GK
Stemming
- Porter Stemmer (rule-based stemmer) - FS
Term Extraction
- Termine (Nactem term extraction) - GD
- ATR-cvalue (local term recognition tool) - GK
Named Entity Recognition
- Medical
  - MetaMap ?
- Genes
  - BANNER (Java NER library; currently the best choice for NER) - DJ
  - GNAT (Java NER + normalization) - MG
  - GeneTUKit (Java NER + normalization; currently the best choice for NER+normalization) - MG
  - ABNER (Java NER library)
- Species
  - LINNAEUS (General Java package for dictionary NER and normalization)
Negation
- NegEx (simple regular expression - based negation detection for sentences) - FS
- Negmole (Negation detection of BioNLP '09 event data - FS
TM Frameworks
- MinorThird
- UIMA - AD
- GATE
- LingPipe - RA
- pubtools - MG, FS
Web Mining
- Pattern
- Twitter4J
Information Retrieval
- Terrier IR Platform - RA
ML and Data Mining
- RapidMiner
- Clementine
- Weka
- Mallet
- CRF something - FS
- SVM light - FS
- libsvm - FS
Data Integration
- Taverna - GD
- Galaxy
- Ontogrator
Temporal expressions
- MITRE TIDES - Temporal Annotation Guidelines 1.0.2 - MF
- - Temporal expression normaliser (General domain) - MF
Visualisation
- Term clouds - GD
- Cytoscape -- James Eales
- yED (flowchart editor)
NLP Toolkit
- NLTK - Natural Language ToolKit in Python - MF
Courses online
- NLP course from Stanford - It's free! - MF
Videos
- O'Reilly Strata Conference - Making data work, 2011 - MF
- GoogleTechTalk's Channel - Machine learning, big data, text mining, 2012 - MF