LabelTool Connector

LabelTool is an in-house module enabling rapid annotation of pre-extracted entities.

We provide a ready-to-use function that converts a list of annotated spaCy documents into a pandas DataFrame that is readable to LabelTool.

import edsnlp, edsnlp.pipes as eds

from edsnlp.connectors.labeltool import docs2labeltool

corpus = [
    "Ceci est un document médical.",
    "Le patient n'est pas malade.",
]

# Instantiate the spacy pipeline
nlp = edsnlp.blank("fr")
nlp.add_pipe(eds.sentences())
nlp.add_pipe(eds.matcher(terms=dict(medical="médical", malade="malade")))
nlp.add_pipe(eds.negation())

# Convert all BRAT files to a list of documents
docs = nlp.pipe(corpus)

df = docs2labeltool(docs, extensions=["negation"])

The results:

note_id	note_text	start	end	label	lexical_variant	negation
0	Ceci est un document médical.	21	28	medical	médical	False
1	Le patient n'est pas malade.	21	27	malade	malade	True