A Python client for Sherlok
Project description
Sherlok is a flexible and powerful open source, distributed, real-time text-mining engine.
pip install --upgrade sherlok from sherlok import Sherlok s = Sherlok('neuroner') # returns a list of tuples (begin, end, text, annotation_type, attributes{}) print s.annotate('layer 4 neuron') [(0, 14, 'layer 4 neuron', u'Neuron', {}), (8, 14, 'neuron', u'Neuron', {}), (8, 14, 'neuron', u'NeuronTrigger', {}), (0, 7, 'layer 4', u'Layer', {u'ontologyId': u'HBP_LAYER:0000004'})] # filtering and finding the text back txt = 'parvalbumin-positive fast-spiking basket cells, somatostatin-positive regular-spiking bipolar and multipolar cells, and cholecystokinin-positive irregular-spiking bipolar and multipolar cells' morphology = s.annotate(txt, u'Morphology') for (start, end, text, _type, properties) in morphology: print text, properties[u'ontologyId'] basket HBP_MORPHOLOGY:0000019 bipolar HBP_MORPHOLOGY:0000006 multipolar HBP_MORPHOLOGY:0000035 bipolar HBP_MORPHOLOGY:0000006 multipolar HBP_MORPHOLOGY:0000035
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