icd2phecode

Mapping the disease code from icd10 to phecode; the mapping are based on https://phewascatalog.org/phecodes;
The input if using ICD-10 should be a string f numbers and capital letters only. For example, "I25.1" should be "I251".

We propose an age-dependent topic modelling (ATM) model,
providing a low-rank representation of longitudinal records of
hundreds of distinct diseases in large electronic health record data sets. The model
assigns to each individual topic weights for several disease topics;
each disease topic reflects a set of diseases that tend to co-occur as
a function of age, quantified by age-dependent topic loadings for each
disease. The model assumes that for each disease diagnosis, a topic is
sampled based on the individual’s topic weights (which sum to 1 across
topics, for a given individual), and a disease is sampled based on the
individual’s age and the age-dependent topic loadings (which sum to 1
across diseases, for a given topic at a given age). The model
generalises the Latent Dirichlet Allocation (LDA) model by allowing
topic loadings for each topic to vary with age.
References: Jiang (2023) <doi:10.1038/s41588-023-01522-8>.

Xilin Jiang

AgeTopicModels

Inferring Age-Dependent Disease Topic from Diagnosis Data

icd2phecode function

<dl><dt>rec_data</dt>
<dd>input data which use ICD10 encoding; please refer to the internal example data <code>HES_icd10_example</code> for the formatting of the data.</dd></dl>

Arguments

Mapping the disease code from icd10 to phecode — icd2phecode

<dl>

<dt>rec_data</dt>
<dd>input data which use ICD10 encoding; please refer to the internal example data <code>HES_icd10_example</code> for the formatting of the data.</dd>

</dl>

icd2phecode: Mapping the disease code from icd10 to phecode

Description

Usage

Value

Arguments

Examples