Using the Physionet HRV Toolbox, available on MATLAB. Will be using this for analysis of data from ECG patch systems, such as MC10 and Biostamp. The MATLAB toolbox is open-source. Has time, frequency, and non-linear domain creation.
HRV package also available in R, called RHRV. Currently unfamiliar with how it compares to other mechanisms of measuring HRV (and whether it takes alternative signal, e.g. PPG or BP time series).
Python package is available as well called hrvanalysis. Built on SciPy, AstroPy, NumPy. Not familiar myself with utility.
- Kubios: haven't used, not sure of quality, aimed at sports/athletic HRV
- HRVAnalysis: developed via MATLAB, but is free-standing software, appears to be aimed at research/ANS measurements
- SinusCor: haven't used, free
- ACKHRV: paid software, not clear of quality
The input system is limited to two equal-length vectors. RR intervals in seconds and time series information in seconds is needed. Alternatively, can use raw ECG signal with sampling frequency.
This may be the most commonly used mechanism for obtaining RR intervals for the current project. They have a complex format of producing the data (text file from the log that contains much more than just RR and time series).
File Format - every line separated by Newline
SampleData{} <- contains date and time RWL <- unsure what this is RRI <- contains RR interval ECG <- raw ECG signal amplitude in milivolts (?) XYZ <- accelorometer data in 3D space (x, y, z axis)
Sample format is...
SampleData{time=1565027207098, date=2019/08/05 13:46:47.098, leadOn=true, flash=true, HR=88, RR=0.0, activity=false, magnification=1000} RWL : -1, -1, -1, -1, -1 RRI : 0, 0, 0, 0, 0 ECG : -4, 1, -1, 2, 7, 7, 10, 12, 11, 6, 4, 4, 2, 4, 8, 7, 5, 5, 8, 6, 5, 2, -2, -1, 1, 1, 3, 1, 3, 1, 3, 5, 6, 3, 4, 4, 6, 10, 11, 15, 12, 7, 9, 4, 2, 5, 8, 2, 4, 5, 10, 17, -12, -67, -72, 9, 100, 101, 75, 70, 71, 53, 20, 1, -7, -11, -10, -6, -13, -14, -16, -14, -12, -14, -17, -18, -10, -9, -14, -13, -12, -6, -8, -7, 0, 0, 5, 6, 13, 13, 6, 3, -1, 4, 2, -3, -10, -4, -6, -2, -9, -10, -10, -15, -18, -13, -18, -17, -16, -24, -25, -14, -19, -23, -29, -33, -35, -27, -33, -29, -26, -27, -30, -44, -41, -34, -44, -38 XYZ : acc = 5 -1624 1200 -77, -1630 1193 -92, -1643 1194 -102, -1640 1184 -115, -1650 1151 -121
VivaLNK has an SDK app for androids (and for iPhones) for cnotrolling the device. Its bluetooth-connected. App is in this folder (but just the android one).
Looking at this in time-series data.
The code here is to analyze T wave fiducial points. This is based on single-lead analysis, and can generate not only amplitude, but T-wave shape (e.g. end-points, area, etc).
The VU-AMS (VU University Ambulatory Monitoring System) Data, Analysis & Management Software
This device measures multiple recordings on different channels:
- Heart Rate / Inter beat Interval (IBI)
- Heart Rate Variability (SDNN, RMSSD, IBI power spectrum: HF, LF)
- Respiratory Sinus Arrhythmia (RSA)
- Pre-Ejection Period (PEP)
- Left Ventricular Ejection Time (LVET)
- Respiration Rate (RR)
- Stroke Volume (SV) and Cardiac Output (CO)
- Skin Conductance Level (SCL) and Skin Conductance Responses (SCRs)
- Tri-Axial Accelerometry (Body Movement)
Using the BIMI dataset, will be measuring PEP using both ECG and ICG signal. All code credit goes to Nil. Need VUDAMS software to see/interact with the actual raw data.
Does BRS correlate with HRV? How does MSNA lead to changes in BP (e.g. neuromuscular transduction)? Are there noninvasive correlates to MSNA (e.g. LF/HF, TWA) What are the effects of ACEI, ARB, BB on sympathovagal balance?
Hokanson is the company that produces the VOP devices. Strong literature by Larry Sinoway and Holly Middlekauff showing association with sympathetic tone. The device itself is owned by Arshed Quyyumi here at Emory.
Will venous occlusion plethysmography serve as a useful clinical measure for SNS outflow?
Headed up by Dr. PS Chen at Indiana University. Known to correlate with AF and VT/VF events. The device setup guide, and videos, have been shared with our lab group.
MARS Holter ECG system has raw binary files stores in the MIT-BIH signal format (a header and signal file), supported on by Physionet.
Need to assess how to read-in the .sig and .hdr filetypes, currently stored in the raw data folder.
Stored in the HIPAA/PHI-safe data folder. Individual files are likely in WFDB format with appropriate annotation (or in XML format to be converted).
- qtdb = PhysioNet QTDB with manual annotation of beat onsets and offsets
- ludb = IEEE ECG delineation algorithm paper dataset