Data from: Spatiotemporal incidence of Zika and associated environmental drivers for the 2015-2016 epidemic in Colombia

(2019) Data from: Spatiotemporal incidence of Zika and associated environmental drivers for the 2015-2016 epidemic in Colombia. DRYAD doi:10.5061/dryad.83nj1 [Dataset]

Abstract

Despite a long history of mosquito-borne virus epidemics in the Americas, the impact of the Zika virus (ZIKV) epidemic of 2015-2016 was unexpected. The need for scientifically informed decision-making is driving research to understand the emergence and spread of ZIKV. To support that research, we assembled a data set of key covariates for modeling ZIKV transmission dynamics in Colombia, where ZIKV transmission was widespread and the government made incidence data publically available. On a weekly basis between January 1, 2014 and October 1, 2016 at three administrative levels, we collated spatiotemporal Zika incidence data, nine environmental variables, and demographic data into a single downloadable database. These new datasets and those we identified, processed, and assembled at comparable spatial and temporal resolutions will save future researchers considerable time and effort in performing these data processing steps, enabling them to focus instead on extracting epidemiological insights from this important data set. Similar approaches could prove useful for filling data gaps to enable epidemiological analyses of future disease emergence events.,Weekly mean temperature at 2.5 arc-minutesRaster brick of weekly mean temperature calculated as the average of the daily mean temperature (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named tmean_wk151025 has mean temperature for the week that starts on October 25, 2015.mean_temperature.zipWeekly minimum temperature at 2.5 arc-minutesRaster brick of weekly minimum temperature calculated as the average of the daily minimum temperature (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named tmin_wk151025 has minimum temperature for the week that starts on October 25, 2015.min_temperature.zipWeekly maximum temperature at 2.5 arc-minutesRaster brick of weekly maximum temperature calculated as the average of the daily maximum temperature (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named tmax_wk151025 has maximum temperature for the week that starts on October 25, 2015.max_temperature.zipWeekly relative humidity at 2.5 arc-minutesRaster brick of weekly average relative humidity calculated as the average of the daily mean relative humidity (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named rh_wk151025 has average relative humidity for the week that starts on October 25, 2015.rel_humidity.zipWeekly MODIS Terra NDVI at 2.5 arc-minutesRaster brick of weekly average NDVI from NASA's Terra satellite and MODIS sensor (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named ndvi_modis_terra_wk151025 has the NDVI values for the week that starts on October 25, 2015.ndvi_modis_terra.zipWeekly MODIS Aqua NDVI at 2.5 arc-minutesRaster brick of weekly average NDVI from NASA's Aqua satellite and MODIS sensor (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named ndvi_modis_aqua_wk151025 has average NDVI for the week starting on October 25, 2015.ndvi_modis_aqua.zipWeekly precipitation at 2.5 arc-minutesRaster brick of weekly total precipitation calculated as the total of the daily precipitation (a total of 143 weeks between Jan 5, 2014 and Oct 1, 2016), in GRI format, at a resolution of 2.5 arc-minutes. Layer names indicate the date each week starts on. For example, the layer named precip_wk151025 has precipitation for the week that starts on October 25, 2015.precipitation.zipAedes aegypti population at 2.5 arc-minutesRaster brick of ratio of Aedes aegypti population to human population at each week of the year (a total of 52 weeks), in GRI format, at a resolution of 2.5 arc-minutes.aegypti_population.zipGridded population in 2015 at 3 arc-secondsColombia population in 2015. The file is in BIL format, at a resolution of 3 arc-seconds.wpop_ppp_v2b_col_2015_0_05m.zipGridded births in 2015 at 3 arc-secondsColombia births in 2015. The file is in BIL format, at a resolution of 3 arc-seconds.wpop_births_col_2015_0_05m.zipGridded urban population in 2015 at 15 arc-secondsColombia urban population in 2015 obtained by multiplying WorldPop gridded population by urban extent binary raster file. the file in BIL format at a resolution of 15 arc-seconds.urban_pop_col_0_25m.zipGridded travel time at 30 arc-secondsColombia travel time (in minutes) to the nearest city of 50,000 or more population in year 2000. The file is in BIL format, at a resolution of 30 arc-seconds.travel_time_50k_col_0_5m.zipGridded gross cell product at 2.5 arc-minutesPer capita gross cell product in 2005 $US for Colombia cropped to match all other raster outputs. The file is in BIL format, at a resolution of 2.5 arc-minutes (resampled from the original 60 arc-minutes raster file).gecon_col_pcppp_2005_2_5m.zipWeekly Zika casesWeekly Zika cases at municipality, department and national levels (in .csv format).weekly_zika_cases.zipWeekly covariates aggregated at municipality levelTime series of weekly covariates aggregated at municipality level. This .zip file contains eight tables (in .csv format) of time series for aegypti population, maximum temperature, mean temperature, minimum temperature, NDVI MODIS Aqua, NDIV MODIS Terra, precipitation and relative humidity.spatial_aggregates_municip.zipWeekly covariates aggregated at department levelTime series of weekly covariates aggregated at department level. This .zip file contains eight tables (in .csv format) of time series for aegypti population, maximum temperature, mean temperature, minimum temperature, NDVI MODIS Aqua, NDIV MODIS Terra, precipitation and relative humidity.spatial_aggregates_dept.zipWeekly covariates aggregated at national levelTime series of weekly covariates aggregated at national level. This .zip file contains eight tables (in .csv format) of time series for aegypti population, maximum temperature, mean temperature, minimum temperature, NDVI MODIS Aqua, NDIV MODIS Terra, precipitation and relative humidity.spatial_aggregates_national.zipWeekly weighted covariates aggregated at municipality levelTime series of weekly covariates, weighted by population, aggregated at municipality level. This .zip file contains eight tables (in .csv format) of time series for aegypti population, maximum temperature, mean temperature, minimum temperature, NDVI MODIS Aqua, NDIV MODIS Terra, precipitation and relative humidity.weighted_spatial_aggregates_municip.zipWeekly weighted covariates aggregated at department levelTime series of weekly covariates, weighted by population, aggregated at department level. This .zip file contains eight tables (in .csv format) of time series for aegypti population, maximum temperature, mean temperature, minimum temperature, NDVI MODIS Aqua, NDIV MODIS Terra, precipitation and relative humidity.weighted_spatial_aggregates_dept.zipWeekly weighted covariates aggregated at national levelTime series of weekly covariates, weighted by population, aggregated at national level. This .zip file contains eight tables (in .csv format) of time series for aegypti population, maximum temperature, mean temperature, minimum temperature, NDVI MODIS Aqua, NDIV MODIS Terra, precipitation and relative humidity.weighted_spatial_aggregates_national.zipFixed time covariates aggregated at all levelsFixed time covariates aggregated at municipality, department and national levels (in .csv format). This .zip file contains three tables (in .csv format), one for each level, with data on population, births, urban population, mean gross cell product and mean travel time.spatial_aggregate_non_timeseries.zipSpatial time series movies ZIKV cases and environmental drivers.Spatial time series movies ZIKV cases and environmental drivers at weekly time step and municipality level (in .MP4 format). This file includes nine movies: weekly number of cases, cumulative number of cases, average NDVI (Aqua), average NDVI (Terra), total precipitation, relative humidity, minimum temperature, mean temperature and maximum temperature.spatial_timeseries_movies.zip

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Contributors

Contributor: Natalia Tejedor-Garavito

Contributor: Andrew J. Tatem

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