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Annotators

Below is a list of pre-registered, automatic annotation services which are interoperable with PubAnnotation.

If you do not know an applicable annotation service to your purpose, you may want to take a look at PubDictionaries, which is a highly customizable, dictionary-based text annotation service.

Name DescriptionMaintainer
1-18 / 18
TextSentencersentence segmentationJin-Dong Kim
PubTator-SpeciesTo pull the pre-computed Species annotation from PubTator.Jin-Dong Kim
PubTator-MutationTo pull the pre-computed mutation annotation from PubTator.Jin-Dong Kim
PubTator-GeneTo pull the pre-computed gene annotation from PubTator.Jin-Dong Kim
PubTator-DiseaseTo pull the pre-computed disease annotation from PubTator.Jin-Dong Kim
PubTator-ChemicalTo pull the pre-computed chemical annotation from PubTator.Jin-Dong Kim
PD-UBERON-AE-BIt annotates for anatomical entities, based on the UBERON-AE dictionary on PubDictionaries. It used the default threshold, 0.85. It uses the batch mode annotation, and may be used for annotation to a large amount of documents.Jin-Dong Kim
PD-UBERON-AEIt annotates for anatomical entities, based on the UBERON-AE dictionary on PubDictionaries. Threshold is set to 0.85.Jin-Dong Kim
PD-Preeclampsia-BJin-Dong Kim
PD-NGLY1-deficiency-BA batch annotator for NGLY1 deficiencyJin-Dong Kim
PD-GlycoGenes-BJin-Dong Kim
PD-GlycoEpitope-BA batch annotator using PubDictionaries with the dictionary 'GlycoEpitope'Jin-Dong Kim
OntoGeneEROntoGene Entity RecognitionNico Colic
LappsGridTimeMLTimeML event annotator from GATE running on the Language Applications Grid.ksuderman
LappsGridStanfordPOSTaggerStanford Part-Of-Speech tagger running on the Language Applications Grid.ksuderman
LappsGridGeneTaggerGATE Gene tagger running on the Language Applications Gridksuderman
LappsGridBioNERThe Abner Tagger for BioMedical named entity recognition running on the Language Applications Grid.ksuderman
EnjuParserEnju HPSG Parser developed by University of Tokyo.Jin-Dong Kim
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