Clinical Events and Specialty Agreement: Multi-Site, Anomaly Detection, Cross-Sectional Analysis
Created
Last Modified
Files
Access Code Repository
Domain
Category
Parameters
Publisher
This check computes types of clinical events that occur across clinician or facility specialties and across time. It provides a high level summary of the quality of clinical specialty data in a study sample to examine multiple sites. The intention of the check is to evaluate the concordance of specific events (e.g., diagnosis of type I diabetes) and specialist providers or care sites (e.g., endocrinologist or endocrinology clinic) at the visit level.
Data Requirements
Probe
Clinical Assessment
Access Package
# install.packages("devtools")
devtools::install_github('ssdqa/https://github.com/ssdqa/clinicalevents.specialties')Visualization Output
This check outputs a line plot that displays the proportion of visits per specialty across time. Time is mapped on the x-axis and the proportion of site,s visits to the specialty in mapped on the y axis. The graph is stratified by a user-selected specialty. Each site is represented by a color. A dotted line represent the overall proportion across all sites. The user can adjust the top n represented specialties. Each site data can be isolated by double clicking on the legend. Hovering over a data point provides a tooltop containing the site name, proportion of the site’s visits, and the time_start.
Raw Output
The raw data output requires the user to annotate the specialty name output before running the output function.
| Column | Data Type | Definition |
|---|---|---|
specialty_name |
character | user provided annotation |
specialty_concept_id` |
numeric / character | the concept indicating the specialty of the provider and/or care site |
specialty_concept_name |
character | if a vocabulary table is provided, the name of the specialty associated with the specialty_concept_id |
{.dqcheck-table}
The resulting raw data output of this check produces eight columns of data:
| Column | Data Type | Definition |
|---|---|---|
specialty_concept_id` |
numeric / character | the concept indicating the specialty of the provider and/or care site |
cluster |
character | the cluster assigned in the user provided codeset; if no cluster is indicated, the name of the concept is used |
num_visits |
numeric | the number of visits associated with the specialty_concept_id & cluster |
codeset_name |
character | the name of the codeset provided for the analysis |
site |
character | the name of the site being targeted OR “combined” if multiple sites were provided for a single site analysis |
age_grp |
character | if an age group dataframe is provided, a string indicating the age grouping at the time of the specialty visit |
visit_type |
character | if a visit type dataframe is provided, the visit type of the specialty visit |
Affiliation(s)
Funder(s)
Provenance
Description
Development Code
Clinical Subjects Headings
Related Publications
Creative Commons license
