New features in cohort analysis

[chen-regen]

Creating a separate issue for this off of the main topic (#217).

Those new features are cohort analysis (old Heracles) related.

1. Data completeness

A short description of the feature
Generate a table with percentages to indicate how complete the person data is for gender, race and ethnicity. For example, for patients age 0~10, 65% has race data, etc.

The organization or developers that are involved in the implementation
Chen at Regenstrief

Any anticipated impact to current WebAPI/Atlas functionality (if applicable)
Back-end will be in WebAPI cohort analysis
Atlas changes will be under cohort->reporting

2. Observation entropy

A short description of the feature
Calculate Shannon entropy for column observation.value_as_string per day and show them in a line chart.

The organization or developers that are involved in the implementation
Chen at Regenstrief

Any anticipated impact to current WebAPI/Atlas functionality (if applicable)
Back-end will be in WebAPI cohort analysis
Atlas changes will be under cohort->reporting

3. Timeliness

A short description of the feature
Calculate average delay time between observation.observation_date and row_created_db_time each day and show them in chart.

The organization or developers that are involved in the implementation
Chen at Regenstrief

Any anticipated impact to current WebAPI/Atlas functionality (if applicable)
Back-end will be in WebAPI cohort analysis
Atlas changes will be under cohort->reporting

[chen-regen]

@anthonysena Hi Anthony, I have create 2 pull requests for WebAPI and Atlas. Please let me know if there's any issues. Thank you!

[chen-regen]

Attaching screenshot for data completeness feature:

[chen-regen]

Screenshot for entropy:

[chen-regen]

Another for entropy:

[anthonysena]

Thanks! These contributions have been pulled into the V2.1 release branch. Hoping that you can collaborate on the cohort characterization work #222 as well!

[chen-regen]

Issue 104 in CDM created for feature 3.

[chrisknoll]

Maybe we could move feature 3 to it's own issue so that we can mark the completed ones as closed?

[chen-regen]

@anthonysena Hi Anthony, I have added "care site" based entropy as we discussed couple of weeks ago for "feature 2". Below please take a look at the screenshots. I created "R21_entropy" branches for both WebAPI and Atlas. I will create pull requests in a minute.

[anthonysena]

Closed via #246