COPD

The eds.copd pipeline component extracts mentions of COPD (Chronic obstructive pulmonary disease). It will notably match:

• Mentions of various diseases (see below)
• Pulmonary hypertension
• Long-term oxygen therapy

Details of the used patterns

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Extensions

On each span span that match, the following attributes are available:

• span._.detailed_status: set to "PRESENT"

Examples

import edsnlp

nlp = edsnlp.blank("eds")
nlp.add_pipe("eds.sentences")
nlp.add_pipe(
    "eds.normalizer",
    config=dict(
        accents=True,
        lowercase=True,
        quotes=True,
        spaces=True,
        pollution=dict(
            information=True,
            bars=True,
            biology=True,
            doctors=True,
            web=True,
            coding=True,
            footer=True,
        ),
    ),
)
nlp.add_pipe(f"eds.copd")

Below are a few examples:

123456

text = "Une fibrose interstitielle diffuse idiopathique"
doc = nlp(text)
spans = doc.spans["copd"]

spans
# Out: [fibrose interstitielle diffuse idiopathique]

text = "Patient atteint de pneumoconiose"
doc = nlp(text)
spans = doc.spans["copd"]

spans
# Out: [pneumoconiose]

text = "Présence d'une HTAP."
doc = nlp(text)
spans = doc.spans["copd"]

spans
# Out: [HTAP]

text = "On voit une hypertension pulmonaire minime"
doc = nlp(text)
spans = doc.spans["copd"]

spans
# Out: []

text = "La patiente a été mis sous oxygénorequérance"
doc = nlp(text)
spans = doc.spans["copd"]

spans
# Out: []

text = "La patiente est sous oxygénorequérance au long cours"
doc = nlp(text)
spans = doc.spans["copd"]

spans
# Out: [oxygénorequérance au long cours]

span = spans[0]

span._.assigned
# Out: {'long': [long cours]}

Parameters

PARAMETER	DESCRIPTION
nlp	The pipeline TYPE: Optional[PipelineProtocol] DEFAULT: None
name	The name of the component TYPE: Optional[str] DEFAULT: 'eds.copd'
patterns	The patterns to use for matching TYPE: Union[Dict[str, Any], List[Dict[str, Any]]] DEFAULT: [{'source': 'main', 'regex': ['alveolites.{1,5}...
label	The label to use for the Span object and the extension TYPE: str DEFAULT: copd
span_setter	How to set matches on the doc TYPE: SpanSetterArg DEFAULT: {'ents': True, 'copd': True}

Authors and citation

The eds.copd component was developed by AP-HP's Data Science team with a team of medical experts. A paper describing in details the development of those components is being drafted and will soon be available.

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