Description
This pretrained model maps MedDRA-LLT (Lowest Level Term) codes to corresponding ICD10 codes. Some of the MedDRA LLT codes map to more than ICD-10 codes. You can find all the mapped ICD-10 codes in the all_k_resolutions column in the metadata.
Predicted Entities
How to use
document_assembler = DocumentAssembler()\
.setInputCol('text')\
.setOutputCol('doc')
chunk_assembler = Doc2Chunk()\
.setInputCols(['doc'])\
.setOutputCol('ner_chunk')
mapperModel = ChunkMapperModel.load('meddra_llt_icd10_mapper')\
.setInputCols(["ner_chunk"])\
.setOutputCol("mappings")\
.setRels(["icd10_code"])
mapper_pipeline = Pipeline(stages=[
document_assembler,
chunk_assembler,
mapperModel
])
data = spark.createDataFrame([["10045275"], ["10067585"], ["10026182"]]).toDF("text")
mapper_model = mapper_pipeline.fit(data)
result = mapper_model.transform(data)
val document_assembler = DocumentAssembler()
.setInputCol("text")
.setOutputCol("doc")
val chunk_assembler = Doc2Chunk()
.setInputCols(Array("doc"))
.setOutputCol("ner_chunk")
val mapperModel = ChunkMapperModel.load("meddra_llt_icd10_mapper")
.setInputCols(Array("ner_chunk"))
.setOutputCol("mappings")
.setRels(Array("icd10_code"))
val mapper_pipeline = new Pipeline().setStages(Array(
document_assembler,
chunk_assembler,
mapperModel
)
val data = Seq("10045275", "10067585", "10026182").toDF("text")
val mapper_model = mapper_pipeline.fit(data)
val result = mapper_model.transform(data)
Results
+-----------+-------------------------------------------------+--------------------------------------------------------+
|meddra_code|icd10_code |all_k_resolutions |
+-----------+-------------------------------------------------+--------------------------------------------------------+
|10045275 |A01:Typhoid and paratyphoid fevers |A01:Typhoid and paratyphoid fevers:::A01.0:Typhoid fever|
|10067585 |E11:Type 2 diabetes mellitus |E11:Type 2 diabetes mellitus::: |
|10026182 |C15.9:Malignant neoplasm: Oesophagus, unspecified|C15.9:Malignant neoplasm: Oesophagus, unspecified::: |
+-----------+-------------------------------------------------+--------------------------------------------------------+
Model Information
| Model Name: | meddra_llt_icd10_mapper |
| Compatibility: | Healthcare NLP 5.3.0+ |
| License: | Licensed |
| Edition: | Official |
| Input Labels: | [ner_chunk] |
| Output Labels: | [mappings] |
| Language: | en |
| Size: | 216.1 KB |
References
This model is trained with the January 2024 release of ICD-10 to MedDRA Map dataset.
To utilize this model, possession of a valid MedDRA license is requisite. If you possess one and wish to use this model, kindly contact us at support@johnsnowlabs.com.