comparability_mobility_data

Code and data for "Assessing comparability between mobility data sources" manuscript

Functions code

Functions source code: functions_sims_aim3.R This includes the similation functions, as well as adapted functions for fitting mobility models using informative priors.

Source code

Generating mobility matrices: combining_datasets_2022_02_12.Rmd Run first to set up initial conditions for measles simulations: set_up_ICs_aim3.Rmd Rmd with simulations: simulations_aim3.Rmd Make figures and tables using created output: figures and tables.Rmd

Data sets

Data included:
*Note: individual-level data not provided due to privacy and confidentiality of participants. We provide district-level origin-destination matrices for three data sets:

1. Facebook: data/M_fb_all.RDS
2. Mobile phone data: data/OD_data_diag.rds
3. Travel survey: data/mobility_mat_travelsurvey.RDS Note that DHS data are publically available from https://dhsprogram.com/methodology/survey/survey-display-542.cfm
   These origin-destination matrices were used to fit the departure-diffusion models, compare probabilities of departure, and combine in the Bayesian framework.

Predicted origin-destination matrices using different combinations of departure and diffusion data sets

Each object is a set of 100 predicted origin-destination matrices. These serve as inputs in the measles simulations

1. mobile phone departure, mobile phone diffusion: data/pred/M_CDR_full.rds
2. Facebook departure, Facebook diffusion: data/pred/M_FB_full.rds
3. Travel survey departure, travel survey diffusion: data/pred/M_TS_full.rds
4. DHS departure, travel survey diffusion: data/pred/M_DHS_TS_full.rds
5. DHS departure, Facebook diffusion: data/pred/M_DHS_FB_full.rds
6. Mobile phone adjusted using DHS departure, mobile phone diffusion: data/pred/M_CDRwDHS_CDR_full.rds
7. Facebook adjusted using DHS departure, Facebook diffusion: data/pred/M_FBwDHS_FB_full.rds
8. DHS departure, mobile phone diffusion: data/pred/M_DHS_CDR_full.rds
9. Pooled raw departure, mobile phone diffusion: data/pred/M_pool_CDR_full.rds
10. Pooled weighted departure, mobile phone diffusion: data/pred/M_pool_wt_CDR_full.rds
11. Pooled raw departure, Facebook diffusion: data/pred/M_pool_FB_full.rds
12. Pooled raw departure, travel survey diffusion: data/pred/M_pool_TS_full.rds
13. Facebook departure, Facebook with travel survey prior diffusion: data/pred/M_FBwTSpr_FB_full.rds