|
MALLET
|
ML
|
[48]
|
Framework for feature extraction, logistic regression models and inference
|
|
SVMPerf
|
ML
|
[83]
|
Support Vector Machine software for optimizing multivariate performance measures
|
|
Weka
|
ML
|
[64]
|
Collection of machine learning algorithms for data mining, useful for feature selection
|
|
LIBSVM
|
ML
|
[84]
|
Software for support vector classification
|
|
Matlab
|
ML
|
[85]
|
Data analysis, and numeric computation software
|
|
Liblinear
|
ML
|
[86]
|
Linear classifier software
|
|
MEGAM
|
ML
|
[87]
|
Software for maximum entropy model implementation
|
|
C&C CCG parser
|
NLP
|
[55]
|
Parser and taggers are written in C++
|
|
TreeTagger
|
NLP
|
[88]
|
Part-of-speech tagger (trained on PENN treebank)
|
|
SNOWBALL
|
NLP
|
[89]
|
Stemming program
|
|
NooJ
|
NLP
|
[90]
|
Corpus processing and dictionary matching
|
|
Lucene
|
NLP
|
[53]
|
Full-featured text search engine library
|
|
LingPipe
|
NLP
|
[91]
|
Tool kit for processing text using computational linguistics
|
|
PSI-MI
|
Lexical
|
[46]
|
Molecular Interaction Ontology used by PPI databases
|
|
UMLS
|
Lexical
|
[47]
|
Unified Medical Language System which contains a large vocabulary database about biomedical and health-related concepts
|
|
MeSH
|
Lexical
|
[92]
|
Vocabulary thesaurus used for indexing PubMed
|
|
ChEBI
|
Lexical
|
[93]
|
Chemical Entities of Biological Interest
|
|
BioLexicon
|
Lexical
|
[52]
|
Terminological resources integrating data from various bioinformatics collections
|
|
Stop words
|
Lexical
|
[44]
|
Collection of words that are filtered out prior to processing of natural language data
|
|
NLProt
|
BioNLP
|
[94]
|
SVM-based tool for recognition of protein-names in text
|
|
OSCAR3
|
BioNLP
|
[95]
|
Tool for recognition of chemical name mentions in text
|
|
ABNER
|
BioNLP
|
[60]
|
Bio-Named entity recognition (proteins, genes, DNA, etc.)
|
