Original NHANES Physical Activity Monitoring (PAM) data in CSV format, one file per person with no data modifications.
Centers for Disease Control and Prevention (CDC). National Center for Health Statistics (NCHS). National Health and Nutrition Examination Survey Data. Hyattsville, MD: U.S. Department of Health and Human Services, Centers for Disease Control and Prevention, 2003 - 2021, https://wwwn.cdc.gov/nchs/nhanes/.
Physical activity monitoring data only. The following table lists NHANES studies that contained PAM monitoring data:
| Study code name | Years | Source | Number of subjects |
|---|---|---|---|
| C | 2003 - 2004 | NHANES | 7176 |
| D | 2005 - 2006 | NHANES | 7455 |
| G | 2011 - 2012 | NHANES | 6917 |
| H | 2013 - 2014 | NHANES | 7776 |
In total, 29324 participants.
Original data was downloaded from the NHANES website in the .xpt or .xpt.zip formats. If compressed the data was decompressed using unzip. Then .xpt files were converted into corresponding .csv files using r-project and foreign package. This resulted in one large .csv file per NHANES study. Finally, the large .csv files containing all records for that study was split into multiple .csv files using nhanes-csv-split application.
This process is easy to repeat by following instructions in the pa-pattern-complexity repository.
Assuming you have git, 7zip, and sha256sum these are the example commands to retrieve, check sha256 signatures, and decompress data
git clone https://github.com/o-mdr/nhanes-pam-csv-data.git
cd nhanes-pam-csv-data
# Validate checksum for 7z files
(cd 7z-data && sha256sum -c sha256sum.txt)
# Extract data
7z -bt x 7z-data/data.7z.001
# Check the number of files
[ $(find data/ -type f | wc -l) == 29324 ] && echo "Number of files verified: OK"
For faster upload/download multiple small csv files were re-compressed using cross-platform 7zip LZMA level 7 algorithm. Output archive split into files of ~90 MB to allow for smaller and free file uploads to github (files larger than 100 MB aren't allowed with free accounts, checked in October 2021).
# sudo apt-get install p7zip-full
# -bt show progress
# -mx7 default compression method, level 7 (out of 9)
# -v90m split into chunks of ~90 MBs
# a archive name
7z -bt -mx7 -v90m a data.7z data/
# Generate checksum
cd 7z-data
rm sha256sum.txt
for f in *7z*; do sha256sum "$f" >> sha256sum.txt; done
cd ..
# push to git
./git-push-7z-data
This repository is released into public domain. It is built on the valuable work by the Centers for Disease Control and Prevention (CDC) that released the original data into the public domain.
Should you like to cite this work, you could (but not required to) use the following style: O.Mandrychenko, https://github.com/o-mdr/nhanes-pam-csv-data, release [x.x.x], 2021.