Description
This LLM model is trained to perform Q&A, Summarization, RAG, and Chat.
How to use
document_assembler = DocumentAssembler()\
.setInputCol("text")\
.setOutputCol("document")
medical_llm = MedicalLLM.pretrained("jsl_meds_q16_v3", "en", "clinical/models")\
.setInputCols("document")\
.setOutputCol("completions")\
.setBatchSize(1)\
.setNPredict(100)\
.setUseChatTemplate(True)\
.setTemperature(0)
pipeline = Pipeline(
stages = [
document_assembler,
medical_llm
])
prompt = """
A 23-year-old pregnant woman at 22 weeks gestation presents with burning upon urination. She states it started 1 day ago and has been worsening despite drinking more water and taking cranberry extract. She otherwise feels well and is followed by a doctor for her pregnancy. Her temperature is 97.7°F (36.5°C), blood pressure is 122/77 mmHg, pulse is 80/min, respirations are 19/min, and oxygen saturation is 98% on room air. Physical exam is notable for an absence of costovertebral angle tenderness and a gravid uterus.
Which of the following is the best treatment for this patient?
A: Ampicillin
B: Ceftriaxone
C: Ciprofloxacin
D: Doxycycline
E: Nitrofurantoin
"""
data = spark.createDataFrame([[prompt]]).toDF("text")
results = pipeline.fit(data).transform(data)
results.select("completions").show(truncate=False)
val document_assembler = new DocumentAssembler()
.setInputCol("text")
.setOutputCol("document")
val medical_llm = MedicalLLM.pretrained("jsl_meds_q16_v3", "en", "clinical/models")
.setInputCols("document")
.setOutputCol("completions")
.setBatchSize(1)
.setNPredict(100)
.setUseChatTemplate(True)
.setTemperature(0)
val pipeline = new Pipeline().setStages(Array(
document_assembler,
medical_llm
))
val prompt = """
A 23-year-old pregnant woman at 22 weeks gestation presents with burning upon urination. She states it started 1 day ago and has been worsening despite drinking more water and taking cranberry extract. She otherwise feels well and is followed by a doctor for her pregnancy. Her temperature is 97.7°F (36.5°C), blood pressure is 122/77 mmHg, pulse is 80/min, respirations are 19/min, and oxygen saturation is 98% on room air. Physical exam is notable for an absence of costovertebral angle tenderness and a gravid uterus.
Which of the following is the best treatment for this patient?
A: Ampicillin
B: Ceftriaxone
C: Ciprofloxacin
D: Doxycycline
E: Nitrofurantoin
"""
val data = Seq(prompt).toDF("text")
val results = pipeline.fit(data).transform(data)
results.select("completions").show(truncate=False)
Results
The best treatment for this patient is E: Nitrofurantoin. This medication is considered safe during pregnancy and is effective for treating urinary tract infections (UTIs). The other options listed are not recommended during pregnancy due to potential risks to the fetus. Ampicillin (A) and Ceftriaxone (B) are generally safe but may not be the first-line treatment for UTIs. Ciprofloxacin (C) and Doxycycline (D) are contraindicated in pregnancy due to potential adverse effects on fetal development. Nitrofurantoin (E) is a commonly used antibiotic for UTIs during pregnancy and has a good safety profile.
Model Information
| Model Name: | jsl_meds_q16_v3 |
| Compatibility: | Healthcare NLP 5.5.0+ |
| License: | Licensed |
| Edition: | Official |
| Language: | en |
| Size: | 6.1 GB |
Benchmarking
We have generated a total of 400 questions, 100 from each category. These questions were labeled and reviewed by 3 physician annotators. % indicates the preference rate.
Please see the more benchmark information here.
## Overall
| Model | Factuality % | Clinical Relevancy % | Conciseness % |
|------------|--------------|----------------------|---------------|
| JSL-MedS | 0.24 | 0.25 | 0.38 |
| GPT4o | 0.19 | 0.26 | 0.27 |
| Neutral | 0.43 | 0.36 | 0.18 |
| None | 0.14 | 0.13 | 0.17 |
| Total | 1.00 | 1.00 | 1.00 |
## Summary
| Model | Factuality % | Clinical Relevancy % | Conciseness % |
|------------|--------------|----------------------|---------------|
| JSL-MedS | 0.47 | 0.48 | 0.42 |
| GPT4o | 0.25 | 0.25 | 0.25 |
| Neutral | 0.22 | 0.22 | 0.25 |
| None | 0.07 | 0.05 | 0.08 |
| Total | 1.00 | 1.00 | 1.00 |
## QA
| Model | Factuality % | Clinical Relevancy % | Conciseness % |
|------------|--------------|----------------------|---------------|
| JSL-MedS | 0.35 | 0.36 | 0.42 |
| GPT4o | 0.24 | 0.24 | 0.29 |
| Neutral | 0.33 | 0.33 | 0.18 |
| None | 0.09 | 0.07 | 0.11 |
| Total | 1.00 | 1.00 | 1.00 |
## BioMedical
| Model | Factuality % | Clinical Relevancy % | Conciseness % |
|------------|--------------|----------------------|---------------|
| JSL-MedS | 0.33 | 0.24 | 0.57 |
| GPT4o | 0.12 | 0.08 | 0.16 |
| Neutral | 0.45 | 0.57 | 0.16 |
| None | 0.10 | 0.10 | 0.10 |
| Total | 1.00 | 1.00 | 1.00 |
## OpenEnded
| Model | Factuality % | Clinical Relevancy % | Conciseness % |
|------------|--------------|----------------------|---------------|
| JSL-MedS | 0.35 | 0.30 | 0.39 |
| GPT4o | 0.30 | 0.33 | 0.41 |
| Neutral | 0.19 | 0.20 | 0.02 |
| None | 0.17 | 0.17 | 0.19 |
| Total | 1.00 | 1.00 | 1.00 |
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