cict-stepped-wedge-replication

Public data and replication of the paper: Automated vs. Manual Case Investigation and Contact Tracing for Pandemic Surveillance: Evidence from a Stepped Wedge Cluster Randomized Trial

Repository Structure

1. panel_data.csv: Aggregate data from the study used made available for partial replication
2. Figure_Replication.ipynb: A Jupyter notebook replicating Figures 2, 3, 4 (difference-in-differences time series plots)
3. Regression_Replication.ipynb: Partial replication of the regression analysis presented in Table 3 using panel data instead of individual level data
4. Stepped Wedge CICT Protocol.pdf: The study protocol

Data Structure

The data is organized as a ZIP Code x Week panel. For each week/ZIP Code the treatment condition (manual/automated), is recorded along with the number of participants assigned to automated and manual CICT and observed outcomes for participants who recieved each treatment.

Under perfect compliance a ZIP Code in the manual condition would only have individuals assigned to manual CICT, and a ZIP Code in the automated condition would only have individuals assigned to automated CICT; however, due to capacity constraints we observed a large number of overflow cases where individuals in the manual condition were given automated CICT.

As a result, for each outcome we provide the result for participants in each condition (i.e., manual outcome and automated), regardless of what the randomization protocol says. This allows for replicating the ITT analysis, IV analysis and Figures 2,3,4 which visualize the overflow cases as well. The below table shows the data structure:

Column	week	Zip	crossover	svi_label	condition	n_assigned_automated	n_assigned_manual	mean_perc_filled_assigned_automated	mean_perc_filled_assigned_manual
Type			<int,[2,3,4,5]>	<str, "[50,80) SVI" or "[80,100] SVI">	<str, "Manual CICT" or "Automated CICT">			<float, [0,1]>	<float, [0,1]>
Description	Reference week	Reference ZIP Code	Refers to the ZIP Code's belonging to the early (2), medium (3), late (4) or never (5) step down cluster	That ZIP Code's social vulnerability bucket.	The condition that ZIP Code is receiving on that week based on the randomization protocol. In other words, what form of CICT should participants be receiving in that ZIP Code.	Number of participants assigned to automated CICT.	Number of participants assigned to manual CICT	Overall completion rate of data fields for participants in the ZIP Code who were assigned automated CICT	Overall completion rate of data fields for participants in the ZIP Code who were assigned manual CICT
Example	2021-12-13	94040	4	[50,80) SVI	Manual CICT	1	10	0.8181818181818182	0.6545454545454545

There are also additional columns showing the individual data field completion rate.

Data Dictionary

1. week: Reference week
2. Zip: Reference ZIP Code
3. crossover: Refers to the ZIP Code's belonging to the early (2), medium (3), late (4) or never (5) step down cluster
4. svi_label: Whether the ZIP Code is high SVI (80-100) or low SVI (50-80)
5. condition: Whether the ZIP Code is in the manual CICT condition or the automated CICT condition
6. n_assigned_automated: Number of participants in that ZIP Code assigned to automated CICT
7. n_assigned_manual: Number of participants in that ZIP Code assigned to manual CICT
8. mean_perc_filled_assigned_automated: Primary outcome, the overall completion rate for the 11 data fields for the participants who were given automated CICT
9. mean_perc_filled_assigned_manual: Primary outcome, the overall completion rate for the 11 data fields for the participants who were given manual CICT
10. mean_has_race_ethnicity_assigned_automated: Proportion of individuals who recieved automated CICT that provided their race/ethnicity
11. mean_has_race_ethnicity_assigned_manual: Proportion of individuals who recieved manual CICT that answered their race/ethnicity
12. mean_has_employer_assigned_automated: Proportion of individuals who recieved automated CICT that provided their employer
13. mean_has_employer_assigned_manual: Proportion of individuals who recieved manual CICT that provided their employer
14. mean_has_gender_assigned_automated: Proportion of individuals who recieved automated CICT that provided their gender
15. mean_has_gender_assigned_manual: Proportion of individuals who recieved manual CICT that provided their gender
16. mean_has_sexual_orientation_assigned_automated: Proportion of individuals who recieved automated CICT that provided their sexual orientation
17. mean_has_sexual_orientation_assigned_manual: Proportion of individuals who recieved manual CICT that provided their sexual orientation
18. mean_has_language_assigned_automated: Proportion of individuals who recieved automated CICT that provided their preferred language
19. mean_has_language_assigned_manual: Proportion of individuals who recieved manual CICT that provided their preferred language
20. mean_has_signs_or_symptons_assigned_automated: Proportion of individuals who recieved automated CICT that provided their COVID-19 symptoms
21. mean_has_signs_or_symptons_assigned_manual: Proportion of individuals who recieved manual CICT that provided their COVID-19 symptoms
22. mean_has_travel_assigned_automated: Proportion of individuals who recieved automated CICT that provided whether they had travelled recently
23. mean_has_travel_assigned_manual: Proportion of individuals who recieved manual CICT that provided whether they had travelled recently
24. mean_has_attended_gathering_assigned_automated: Proportion of individuals who recieved automated CICT that provided whether they had attened a large gathering recently
25. mean_has_attended_gathering_assigned_manual: Proportion of individuals who recieved manual CICT that provided whether they had attened a large gathering recently
26. mean_has_able_to_self_isolate_assigned_automated: Proportion of individuals who recieved automated CICT that provided whether they were able to self isolate
27. mean_has_able_to_self_isolate_assigned_manual: Proportion of individuals who recieved manual CICT that provided whether they were able to self isolate
28. mean_has_num_contacts_generated_assigned_automated: Proportion of individuals who recieved automated CICT that provided whether they had any recent contacts
29. mean_has_num_contacts_generated_assigned_manual: Proportion of individuals who recieved manual CICT that provided whether they had any recent contacts
30. mean_has_congregate_setting_assigned_automated: Proportion of individuals who recieved automated CICT that provided whether they had any exposure to a congregate setting
31. mean_has_congregate_setting_assigned_manual: Proportion of individuals who recieved manual CICT that provided whether they had any exposure to a congregate setting

Contact

This code and data were prepared by Cameron Raymond on September 13, 2022. If you have questions, reach out to Derek Ouyang at [email protected].