PlotSpectrogram {RHRV}

Calculates and Plots spectrogram

Description

Plots spectrogram of the heart rate signal as calculated by CalculateSpectrogram() function

Usage

PlotSpectrogram(HRVData, size, shift, sizesp = NULL, freqRange = NULL,
  scale = "linear", verbose = NULL, showLegend = TRUE, Tags = NULL,
  Indexes = NULL, eplim = NULL, epColorPalette = NULL,
  markEpisodes = TRUE, ymark = NULL, showEpLegend = TRUE,
  epLegendCoords = NULL, main = "Spectrogram of the HR  series",
  xlab = "Time (sec.)", ylab = "Frequency (Hz.)", ylim = freqRange,
  Tag = NULL, ...)

Arguments

HRVData

Data structure that stores the beats register and information related to it

size

Size of window for calculating spectrogram (seconds)

shift

Displacement of window for calculating spectrogram (seconds)

sizesp

Points for calculation (zero padding). If the user does not specify it, the function estimates a propper value.

freqRange

Vector with two components specifying the frequency range that the program should plot. If the user does not specify it, the function uses the whole frequency range. It is possible to specify the frequency range using the ylim parameter.

scale

Scale used to plot spectrogram, linear or logarithmic

verbose

Deprecated argument maintained for compatibility, use SetVerbose() instead

showLegend

Logical argument. If true, a legend of the color map is shown (default is TRUE)

Tags

List of tags to specify which episodes, as apnoea or oxygen desaturation, are included in the plot. Tags="all" plots all episodes present in the data.

Indexes

List of indexes of episodes (see ListEpisodes()) to specify which episodes are included in the plot. Indexes="all" plots all episodes present in the data.

eplim

Two-component vector specifying the y-range (min,max) for the vertical lines limiting each episode.

epColorPalette

Vector specifying the color of each of the episodes that will be plotted. The length of colorPalette should be equal or greater than the number of different episodes to be plotted.

markEpisodes

Boolean specyfing if a horizontal mark should be included for each of the episodes.

ymark

Two-component vector specifying the y-range (min,max) for the horizontal marks. Only used if markEpisodes = TRUE.

showEpLegend

Boolean argument. If TRUE, a legend of the episodes is included.

epLegendCoords

Two-component vector specifiying the coordinates where the legend should be placed. By defaul, the legend is placed on top of the plot.

main

A main title for the plot.

xlab

A label for the x axis.

ylab

A label for the y axis

ylim

Numeric vectors of length 2, giving the x and y coordinates range. If freqRange is specified, ylim is overwriten by it because of backward compatibility.

Tag

Deprecated argument maintained for compatibility, use Tags instead.

...

Other graphical parameters. See filled.contour.

Details

PlotSpectrogram

Note

PlotSpectrogram with showLegend = TRUE uses the layout function and so is restricted to a full page display. Select showLegend = FALSE in order to use the layout function.

Author(s)

M. Lado, A. Mendez, D. Olivieri, L. Rodriguez, X. Vila. C.A. Garcia

References

L. Rodriguez-Linares, A. Mendez, M. Lado, D. Olivieri, X. Vila, I. Gomez-Conde, "An open source tool for heart rate variability spectral analysis", Computer Methods and Programs in Biomedicine 103, 39-50, doi:10.1016/j.cmpb.2010.05.012 (2011)

See Also

CalculateSpectrogram for spectrogram calculation

Examples

## Not run: 

# Read file "a03" from the physionet apnea-ecg database
library(RHRV)
HRVData <- CreateHRVData()
HRVData <- LoadBeatWFDB(HRVData,RecordName="test_files/WFDB/a03")
HRVData <- LoadApneaWFDB(HRVData,RecordName="test_files/WFDB/a03")
# Add other type of episode for a more complete example (this episode does
# not have any physiological meaning)
HRVData <- AddEpisodes(HRVData,InitTimes=c(4500),Durations=c(1000), 
                       Tags="Other", Values = 1)         
# Calculating heart rate signal:
HRVData <- BuildNIHR(HRVData)
 
# Filtering heart rate signal:
HRVData <- FilterNIHR(HRVData)

# Interpolating heart rate signal:
HRVData = InterpolateNIHR(HRVData)
 
# Calculating and Plotting Spectrogram
spctr <- PlotSpectrogram(HRVData, size = 120, shift = 10, sizesp = 1024,
         freqRange=c(0,0.14), color.palette = topo.colors)
         
spctr <- PlotSpectrogram(HRVData,size=120, shift=60, Tags="all", 
                         ylim=c(0,0.1),
                         showLegend=T, 
                         eplim = c(0,0.06),
                         epColorPalette=c("skyblue","white"), 
                         showEpLegend = T,
                         epLegendCoords = c(15000,0.08), 
                         ymark=c(0.001,0.002))

## End(Not run)