schwartz

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add daily PM2.5, NO2, and O3 concentrations from Schwartz Model to data

DeGAUSS example call

If my_address_file_geocoded_schwartz_site_index.csv (output from the schwartz_grid_lookup container) is a file in the current working directory with columns named sitecode, start_date, end_date, and index_date (optional, see below), then

docker run --rm -v "$PWD":/tmp degauss/schwartz:0.5.5 my_address_file_geocoded_schwartz_site_index.csv

will produce my_address_file_geocoded_schwartz_site_index_schwartz.csv with added columns named date, PM25, NO2, O3, and days_from_index_date (if index_date was supplied in the input data).

The output will be in "long" format, meaning there will be a row for every day between the start_date and end_date, defined by the new date column.

Optional index_date

The user may choose to include a column called index_date to be used to anonymize dates. For example, the index date may be the patient's date of birth. When the index_date column is present in the input data, the output will include all columns as usual, plus a column called days_from_index_date (defined asdate - index_date). The user can then remove the start_date, end_date, and index_date columns from the output (as long as index_date is stored elsewhere) to anonymize the data in terms of date.

Dates and Sitecode formatting

• If start_date and end_date (and index_date) are not in ISO format (YYYY-MM-DD) or standard 'slash' format (MM/DD/YY), the container will return an error.

• If over half of the sitecodes end in all zeros, the container will return a warning, suggesting the user checks that sitecodes have not been unintentionally altered.

See Excel formatting for DeGAUSS for more information.

geomarker methods

Details on methods can be found at https://github.com/geomarker-io/schwartz_exposure_assessment

geomarker data

• Schwartz pollutant data is stored as qs files in a S3 bucket.

• Files are named with 3-digit geohash (or a combination of 3-digit geohashes in areas where population is sparse) and year of pollutant data. For example, s3://geomarker/schwartz/exp_estimates_1km/by_gh3_year/dng_2016_round1.qs

DeGAUSS details

For detailed documentation on DeGAUSS, including general usage and installation, please see the DeGAUSS homepage.