Quantified Flu

The project idea

We are trying to collect some data to answer the following question: Can the various physiological parameters tracked by wearables help to predict when we’re getting sick? This is not only related to #covid19, but also the flu and colds in general.

This question came up in the Quantified Self forum, whether resting heart rate could be used as an early indicator for #covid19 infection. Some preliminary analysis for regular colds & flu-like symptoms showed that it's complicated, as resting heart rate can be fickle for lots of reasons. Body temperature data as measured by the Oura ring seems to be a better indicator, as highlighted by a #covid19 patient here.

To get a better understanding of whether our wearables can help predict cold/flu/etc onsets we are planning to do a retrospective study using wearable data that's annotated with metadata about disease onset times.

The current state

This web application is build on the API of Open Humans, which can already import wearable data streams from Fitbit, Oura, Withings and Google Fit. Earlier, Bastian made some preliminary Jupyter Notebooks for data from Fitbit & Oura, but to broaden the scope and scale up collection efforts from n=1 to n-of-many we need a website. This repo is for building that website.

In the current state it can take in wearable data from Fitbit & Oura and visualize it for a user-given sickness-date.

Contributing

There's still plenty to do before this can launch. Check out our Contribution guidelines & how-to and maybe join us in our Slack. You can join the Open Humans slack by creating an account here and join the #quantifiedflu channel.

How to run locally

We have a Makefile with common commands.

• Do make pip once to install dependencies (using pipenv). Repeat every time the dependencies change.

• Create a copy of env.example like so:

  cp env.example .env

  and populate .env with the correct values for OPENHUMANS and data source credentials.

• Every time you want to run locally, do:

  • make deps

  • optionally make makemigrationslocal (if you've changed the models) and add new migration files to Git.

  • optionally make migratelocal (if setting up locally for the first time, or if you've changed the models)

  • make local. The app will be available at 127.0.0.1:5000

To deploy the current version to heroku, do make deploy.