DigitalBiomarkerDiscoveryPipeline

All

27 repositories

dbdpy
Public
Jupyter Notebook
•0•1•2•0•Updated Jan 8, 2024Jan 8, 2024
DBDP-Ed
Public
Jupyter Notebook
•0•0•0•0•Updated Nov 21, 2023Nov 21, 2023
DigitalBiomarkerDiscoveryPipeline.github.io
Public
Check out our website at dbdp.org! It is hosted here on GitHub pages.
0-website
CSS
•8•1•0•0•Updated Sep 21, 2023Sep 21, 2023
Digital_Health_Data_Repository
Public
The DHDR (Digital Health Data Repository) is a repository with sample data for use with the DBDP.
data wearables digital-health digital-medicine dbdp 0-data
Apache License 2.0
•16•41•3•0•Updated Aug 14, 2023Aug 14, 2023
Case_Studies
Public
DBDP Case Studies
Jupyter Notebook
•1•2•0•0•Updated Jul 14, 2023Jul 14, 2023
Pre-process
Public
Pre-processing methods for mHealth and wearables data.
garmin pipeline dtw signal-processing basis empatica-e4 pre-processing empatica pre-process dtw-algorithm
Python
•11•20•1•3•Updated May 14, 2023May 14, 2023
DBDP-GUI
Public
An interactive GUI that allows users of any skill level to develop biomarkers off wearables data
Python
•0•0•0•0•Updated Nov 14, 2022Nov 14, 2022
Sleep
Public
garmin sleep sleep-analysis sleep-detection 0-feature-generation
Jupyter Notebook
•2•6•2•0•Updated Oct 24, 2022Oct 24, 2022
feature-engineering-and-extraction
Public
0-feature-generation
Python
•
MIT License
•1•0•0•0•Updated Aug 8, 2022Aug 8, 2022
Exploratory-Data-Analysis
Public
Tools for exploratory data analysis of wearables and mHealth data.
pipeline exploratory-data-analysis eda missing-data exploratory-data-visualizations 0-eda
Jupyter Notebook
•3•10•4•2•Updated Aug 6, 2022Aug 6, 2022
Model-Development
Public
General methods for machine learning for digital biomarker discovery.
machine-learning random-forest machine-learning-algorithms ml loocv 0-preprocess
Jupyter Notebook
•4•1•3•3•Updated Aug 5, 2022Aug 5, 2022
DBDP
Public
Start here!
readme resources code-of-conduct contributing user-guide 0-miscellaneous
Apache License 2.0
•10•34•0•0•Updated Jul 25, 2022Jul 25, 2022
CovIdentify
Public
Functions to extract features from wearable data to track and predict infectious disease status.
0-analysis
Python
•
MIT License
•2•3•0•0•Updated Apr 2, 2022Apr 2, 2022
DeepPostures
Public
Deep Learning Methods for Identifying Human Postures from Hip-Worn Accelerometer Data
0-analysis
Python
•
Apache License 2.0
•7•0•0•0•Updated Feb 15, 2022Feb 15, 2022
devicely
Public
Devicely: A Python package for reading, timeshifting and writing sensor data
0-analysis
Python
•
MIT License
•7•0•0•0•Updated Jan 11, 2022Jan 11, 2022
flirt
Public
Are you ready to FLIRT with your wearable data?
0-analysis
Jupyter Notebook
•
MIT License
•21•2•0•0•Updated Nov 5, 2021Nov 5, 2021
Data-Compression-Toolbox
Public
The Wearables Data Compression Toolbox is designed to share data compression algorithms that have been evaluated on wearables data.
compression huffman-coding data-compression run-length-encoding compression-algorithm discrete-cosine-transform singular-value-decomposition wavelet-transform 0-feature-generation
Jupyter Notebook
•2•7•1•0•Updated Jun 11, 2021Jun 11, 2021
nutritionSearchTool
Public
nutrition search tool that uses food2vec
food search-engine nutrition nutrition-information food2vec 0-feature-generation
HTML
•
MIT License
•1•3•1•0•Updated May 28, 2021May 28, 2021
systematic-digital-biomarker-literature-search
Public
this contains a file which was used to filter authors from a pubmed search for a systematic review based on the location of the author (requiring 50% USA led) and that one author from the USA was an academic
literature-review literature-review-tool literature-search 0-feature-generation
Python
•1•1•0•0•Updated Apr 23, 2021Apr 23, 2021
fasting
Public
A Python package to interact with fasting logs from apps like Zero.
metabolism zero fasting fasting-app 0-analysis
Python
•
MIT License
•1•0•0•0•Updated Feb 25, 2021Feb 25, 2021
cgmquantify
Public
Functions to calculate glucose summary metrics, glucose variability metrics (as defined in clinical publications), and visualizations to visualize trends in CGM data.
python diabetes cgm glucose-monitoring t2dm pypi-package glucose-variability glycemic continuous-glucose-monitor 0-analysis
Jupyter Notebook
•
MIT License
•19•15•0•0•Updated Feb 10, 2021Feb 10, 2021
cgmquantify-R
Public
Functions to calculate glucose summary metrics, glucose variability metrics (as defined in clinical publications), and visualizations to visualize trends in CGM data. (In R)
r diabetes cgm glucose-monitoring glucose glucose-variability 0-analysis
R
•
Other
•2•0•0•0•Updated Jan 25, 2021Jan 25, 2021
wearablecompute
Public
wearablecompute is an open source Python package containing over 50 data and domain-driven features that can be computed from wearables and mHealth sensor data.
feature-extraction mhealth feature-engineering wearables wearable-computing empatica digital-biomarkers 0-feature-generation
Python
•
MIT License
•3•3•0•0•Updated Dec 23, 2020Dec 23, 2020
Resting-Heart-Rate
Public
Estimation of resting heart rate.
heart-rate empatica-e4 empatica rhr resting-heart-rate 0-feature-generation
R
•0•5•0•0•Updated Aug 5, 2020Aug 5, 2020
Heart-Rate-Variability
Public
Calculates time and frequency domain heart rate variability metrics (validated in Kubios) from RR interval (ECG) or IBI (PPG).
ecg heart-rate hrv heart-rate-variability ppg ibi rr-interval 0-feature-generation
Python
•6•23•2•0•Updated Aug 5, 2020Aug 5, 2020
Human-Activity-Recognition
Public
Multimodal human activity recognition using wrist-worn wearable sensors.
activity-recognition human-activity-recognition empatica-e4 empatica 0-feature-generation
Jupyter Notebook
•16•44•4•0•Updated Aug 5, 2020Aug 5, 2020
wearablevar
Public
Wearable Variability Package for Python
feature-engineering wearable wearable-devices wearable-variability 0-feature-generation
Python
•
MIT License
•1•1•0•0•Updated Jun 8, 2020Jun 8, 2020