Cocoa Compact cover annotator for biological noun phrases

Cocoa is a dense annotator for biological text. It annotates macromolecules, chemicals, protein/DNA parts, complexes, organisms, processes, anatomical parts, locations, physiological terms, parameters, values, experimental techniques, surgical procedures, and foods. The dense annotation cover should suffice to jumpstart a semantic frame -based relation annotator.

Cocoa is also accessible through a WebAPI, which returns markup in JSON and A1 (GENIA/Brat) formats for integration into text processing pipelines such as GATE. Cocoa is directly accessible for automatic annotation from within the Brat annotator (instructions here). Cocoa can also be used for named entity detection in the Turku event extraction pipeline (instructions here).