Clinical Events and Specialty Agreement: Multi-Site, Anomaly Detection, Longitudinal Analysis
Created
Last Modified
Access Code Repository
Domain
Category
Parameters
Publisher
This check highlights anomalous 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 three visualizations to display the Euclidean distance between two time series: the smoothed (Loess) proportion of a user-selected variable for a given site, and the average proportion of all sites. Two line graphs (one smoother, one raw) represent the proportion of the variable at each site over time. Sites are differentiated by color, and a thick red line represente the All Site Average. A circular bar graph displays the Euclidean distance from the all-site mean where the color represents the average Loess proportion over time.
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 nine 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_idand 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 |
time_start |
date | the start of the time period being examined |
time_increment |
character | the length of each time period |
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
