Processing of actigraphy data related for H4085. This project allows all other repositories in the H4085 family to use the same, consistent data structures for actigraphy data.
Below are instructions for getting the project up-and-running on your local machine.
Before interacting with this repository, users will need R and RStudio installed on their local machine.
Users should ensure that the following R packages are installed: tidyverse, Hmisc, zoo, and openxlsx.
If you are planning on contributing to the code, you'll need to install git. For a tutorial on integrating Git and R, check out Happy Git with R.
- Either
git clone(preferred) or download the repository. - Open
mblt-actigraphy.Rprojin RStudio.
If using the repository specifically for H4085 purposes, you'll need to download the Participant Master List and the Actiware Database from the OHSU Box and the rMEQ and PCL surveys from OHSU REDCap.
The Master List and surveys should be renamed and placed in /data/raw/. Actiware files should be exported from the database following the protocol specified in the H4085 project documentation.
Open src/directory_monitory.ps1 in a text editor and change the file paths to match your machine. This script will when check if any untracked or modified exported Actigraphy files exist in that directory, and will create the various serialized R data object files (.rds) using the new information and store them in the /data/rds/ folder.
This script can be set to run on a chron job for automated monitoring and data integration.
Finally, the .rds files from this repository can be copied into any new project that uses H4085 actigraphy data.
Before contributing any major changes, developers should checkout a development branch. Before merging changes with master, these major additions should be reviewed with a colleague who's familiar with the project.
Code style should adhere to the tidyverse style guide.
This project currently has no functional tests.
Two test scripts exist in the /tests/ folder to illustrate how IS/IV work and another for sample size. Run them as you would any R script.
Developers can use the styler package to automatically format their code.
Our group uses Semantic Versioning for versioning.
- Ryan Opel - Initial contributions - ryan.a.opel@gmail.com
- Philips Actiware - Actigraphy devices and database program
This project is licensed under the GNU General Public License v2.0 - see LICENSE for details.