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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
1-20 / 25 show all
EnjuParserEnju HPSG Parser developed by University of Tokyo.Jin-Dong Kim
Glycan-AbbreviationISSAKU YAMADA
LappsGridBioNERThe Abner Tagger for BioMedical named entity recognition running on the Language Applications Grid.ksuderman
LappsGridGeneTaggerGATE Gene tagger running on the Language Applications Gridksuderman
LappsGridStanfordPOSTaggerStanford Part-Of-Speech tagger running on the Language Applications Grid.ksuderman
LappsGridTimeMLTimeML event annotator from GATE running on the Language Applications Grid.ksuderman
OntoGeneEROntoGene Entity RecognitionNico Colic
PD-FMA-PAEPhysical Anatomical Entities from FMAJin-Dong Kim
PD-FMA-PAE-BBatch mode annotator of PD-FMA-PAEJin-Dong Kim
PD-GlycanStructures-BJin-Dong Kim
PD-GlycoEpitope-BA batch annotator using PubDictionaries with the dictionary 'GlycoEpitope'Jin-Dong Kim
PD-GlycoGenes-BJin-Dong Kim
PD-GlycoProteins-BJin-Dong Kim
PD-MONDO-BJin-Dong Kim
PD-NCBITaxon-BJin-Dong Kim
PD-NGLY1-deficiency-BA batch annotator for NGLY1 deficiencyJin-Dong Kim
PD-Preeclampsia-BJin-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-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
PubTator-ChemicalTo pull the pre-computed chemical annotation from PubTator.Jin-Dong Kim
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