medkit.text.ner.edsnlp_tnm_matcher

Classes

EDSNLPTNMMatcher

TNM (Tumour/Node/Metastasis) string matcher based on the EDS-NLP TNM pipeline.

Module Contents

class medkit.text.ner.edsnlp_tnm_matcher.EDSNLPTNMMatcher(output_label: str = 'TNM', attrs_to_copy: list[str] | None = None, uid: str | None = None)

Bases: medkit.core.text.operation.NEROperation

TNM (Tumour/Node/Metastasis) string matcher based on the EDS-NLP TNM pipeline.

For each TNM string that is found, an entity will be created with an TNMAttribute attribute attached to it containing normalized values of the TNM components.

Parameters:

output_labelstr, default=”TNM”

Label to use for TNM entities created (the label of the attributes will always be “TNM”)

attrs_to_copylist of str, optional

Labels of the attributes that should be copied from the input segment to the created TNM entity. Useful for propagating context attributes (negation, antecedent, etc).

uidstr, optional

Identifier of the matcher

output_label

attrs_to_copy

_edsnlp

run(segments: list[medkit.core.text.Segment]) → list[medkit.core.text.Entity]

Find and return TNM entities for all segments.

Parameters:

segmentslist of Segment

List of segments into which to look for TNM strings

Returns:

list of Entity

TNM entities found in segments, with TNMAttribute attributes

_find_tnms_in_segment(segment, spacy_doc) → Iterator[medkit.core.text.Entity]