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The WFDB Toolbox for MATLAB and Octave is a collection of functions for reading, writing, and processing physiologic signals and fourth dimension series in the formats used by PhysioBank databases (amidst others). The Toolbox is compatible with 64-fleck MATLAB and GNU Octave on GNU/Linux, Mac OS X, and MS-Windows.

When using any of these functions in your work, please look at the assistance for that function to see how to cite the original publication and authors.

In addition, please cite the following references in whatsoever publication that brand utilise of this toolbox:

Silva, I, Moody, G. "An Open up-source Toolbox for Analysing and Processing PhysioNet Databases in MATLAB and Octave." Periodical of Open up Research Software 2(1):e27 [http://dx.doi.org/10.5334/jors.bi] ; 2014 (September 24).

Goldberger AL, Amaral LAN, Glass Fifty, Hausdorff JM, Ivanov PCh, Marker RG, Mietus JE, Moody GB, Peng CK, Stanley HE. "PhysioBank, PhysioToolkit, and PhysioNet: Components of a New Research Resource for Circuitous Physiologic Signals." Apportionment 101(23):e215-e220 [http://circ.ahajournals.org/content/101/23/e215.full]; 2000 (June 13). PMID: 10851218; doi: 10.1161/01.CIR.101.23.e215

For questions, see the FAQ; if your question is non answered there, or for contributions and feedback, delight post at our community forum:

http://groups.google.com/forum/#!forum/wfdb-app-toolbox

The WFDB Toolbox for MATLAB and Octave is a set of Coffee and k-code wrapper functions, which brand system calls to WFDB Software Package and other PhysioToolkit applications.

Using the WFDB Toolbox, MATLAB and Octave users take access to over l PhysioBank databases (over 3 TB of physiologic signals including ECG, EEG, EMG, fetal ECG, PLETH (PPG), ABP, respiration, and more than). Additionally, about of these databases are besides accompanied past metadata such equally good annotations of physiologically relevant events in WFDB annotation files. These tin can include, for example, cardiologists' shell and rhythm annotations of ECGs, or sleep experts' hypnograms (sleep phase annotations) of polysomnograms. All of these physiologic signals and annotations can be read on demand from the PhysioNet web server and its mirrors using the toolbox functions, or from local copies if you choose to download them. This characteristic allows your lawmaking to clarify the wide range of physiologic signals available from PhysioBank without the need to download entire records and to shop them locally.

The Toolbox is open up-source (distributed nether the GNU GPL.) Sources for the current version of the Toolbox are available here (signature). For development snapshots, see the project repository on GitHub. Note that to simplify installation, the Toolbox is distributed with precompiled native executables used by some of its functions. Sources for all of the native executables used in this toolbox can be obtained from PhysioNet (see the individual help files).

Quick Showtime

Prerequisites:

• 64-bit GNU/Linux, Mac OS Ten 10.nine, or MS-Windows
  Other platforms may as well work, merely are not supported by the PhysioNet team, and volition require compiling the Toolbox from source.
• MATLAB R2014a or later on, with a working Coffee Virtual Machine (JVM) that supports Coffee 1.7 or later on; or GNU Octave iii.8.1 or later with the Java package.

The WFDB Toolbox for MATLAB includes and uses its own copies of the compiled WFDB library and many of the WFDB applications. This means that split up shared libraries and executable applications are components of the toolbox for each supported platform (operating system and CPU). Installing the WFDB Toolbox for MATLAB does not interfere with any divide installation of the WFDB Software Package.

To install or update a previous installation of this Toolbox:

1. Open MATLAB or Octave.
2. Go into the directory where you wish to install the Toolbox:

   cd              directoryname            

3. Type (or copy and paste) the following commands into the MATLAB or Octave window:

                  [old_path]=which('rdsamp'); if(~isempty(old_path)) rmpath(old_path(1:terminate-8)); end wfdb_url='https://physionet.org/physiotools/matlab/wfdb-app-matlab/wfdb-app-toolbox-0-x-0.zero'; [filestr,status] = urlwrite(wfdb_url,'wfdb-app-toolbox-0-x-0.zip'); unzip('wfdb-app-toolbox-0-10-0.zip'); cd mcode addpath(pwd) savepath                           

Test the Toolbox:

For a demonstration of the toolbox, run

wfdbdemo        

To read and plot an ECG signal from one of PhysioBank's data collections, attempt these commands:

[sig, Fs, tm] = rdsamp('mitdb/100', 1); plot(tm, sig);        

If these tests exercise non run successfully, please see the Toolbox FAQ for troubleshooting hints.

Toolbox functions

The toolbox'south wrapper functions provide MATLAB and Octave interfaces to some of the most useful stand-lonely (command-line) WFDB applications, which are more fully documented here. Many, only not all, of the features of the stand-alone applications are accessible via toolbox wrappers that have the same names every bit the stand-alone applications; apply MATLAB's or Octave's help function to discover which features are available and how to use them. The toolbox's wfdbexec.html allows admission to all features of any of the installed WFDB stand-alone applications, including any that are inaccessible via the other wrappers.

Click on the name of whatever of the toolbox functions in the list below to view its help file (besides visible inside MATLAB or Octave using the standard assistance function), or on the side by side [source] link to view its source g-code.

ann2rr	[source]	Extract a list of intervals from an annotation file
bxb	[source]	ANSI/AAMI-standard vanquish-by-beat note comparator
dfa	[source]	Detrended Fluctuation Assay
corrint	[source]	Correlation Integral Analysis
ecgpuwave	[source]	Estimation of QRS and P waves from ECG signals
edr	[source]	Derives a respiration signal from an ECG signal
gqrs	[source]	Estimation of QRS from ECG signals
lomb	[source]	Estimates power spectrum using the Lomb periodogram method
mat2wfdb	[source]	Writes a MATLAB variable into a WDFB record file
mrgann	[source]	Merge annotation files
msentropy	[source]	Multi scale entropy estimation
pbsearch	[source]	Search PhysioBank from MALTAB's browser for records with specific features
physionetdb	[source]	Get information about all of PhysioNet's available databases and signals
rdann	[source]	Read annotation files for WFDB records
rdmat	[source]	Read signal stored in a MAT file, converting information technology to physical units.
rdmimic2wave	[source]	Searches MIMIC II matched waveform records within a clinical time range
rdsamp	[source]	Read signal files of WFDB records
snip	[source]	Copy an excerpt of a WFDB record
sortann	[source]	Rearrange annotations in canonical order
sqrs	[source]	Finds the QRS complexes of a WFDB ECG record betoken
sumann	[source]	Summarize the contents of a WFDB annotation file
surrogate	[source]	Generates amplitude adjusted stage shuffled surrogate time serial
tach	[source]	Calculates instantaneous heart rate of a WFDB ECG tape signal
visgraph	[source]	Visibility Graph Analysis
wabp	[source]	Arterial blood pressure (ABP) pulse detector
wfdb	[source]	Prints this help information of the Toolbox
wfdb2mat	[source]	Converts a *.dat record file into a MATLAB *.mat file.
wfdbexec	[source]	Executes a system call to any installed native WFDB command.
wfdbdemo	[source]	Demonstration of the WFDB App Toolbox
wfdbdesc	[source]	Render betoken information for almost a WFDB tape
wfdbdownload	[source]	Download a WFDB record to the local enshroud
wfdbloadlib	[source]	Loads WFDB Library and returns toolbox version and configuration.
wfdbRecordViewer	[source]	GUI for visualizing and analyzing WFDB records and annotations.
wfdbtest	[source]	Tests installation of the Toolbox
wfdbtime	[source]	Converts sample index to WFDB Time based on WFDB record information
woody	[source]	Performs Woody boilerplate (averaging with alignment)
wqrs	[source]	Finds the QRS complexes of a WFDB ECG record signal
wrann	[source]	Writes annotations for WFDB records into notation files
wrsamp	[source]	Writes point information into WFDB-compatible records
xform	[source]	Copy an excerpt of a WFDB tape

Often Asked Questions

Delight make sure you cheque our list of frequently asked questions before contacting us! For the listing of frequently asked questions, come across our FAQ.

Acknowledgments

The current WFDB Toolbox for MATLAB and Octave (besides known equally the WFDB App Toolbox) was created by Ikaro Silva in 2012. The previous WFDB-SWIG Toolbox for MATLAB was created by Michael Craig in 2009. Original contributors of open source native code that is available at PhysioNet are credited in their corresponding MATLAB wrappers. In addition, the following people contributed to the development or testing of the MATLAB wrappers and the JVM interface:

Sahar Alkhairy Fernando Andreotti Joachim Behar Eudald Bogatell Jonas Carlson Gari D. Clifford Michael Craig Mohammad Ghassemi Alistair Johnson

Erina Katsumata Li-wei Lehman Sara Mariani Louis Mayaud Blaž Merela Benjamin Moody George Moody Shamin Nemati Piotr Podziemski

Aled Rowen Kari Schoonbee Daniel J. Scott Ikaro Silva Gabriel Squillace Bryan Tripp Chen Xie Tingting Zhu

Previous Releases

Previous releases of the WFDB Toolbox for MATLAB and Octave can be establish here.

Community Forum

Source: https://archive.physionet.org/physiotools/matlab/wfdb-app-matlab/

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