outline.reconstruction.plot

Show graphs of the reconstruction using different number of levels of wavelet reconstruction and Fourier power using different number of Fourier harmonics.
Uses the output from estimate.outline.reconstruction

Studies otolith shape variation among fish populations.
Otoliths are calcified structures found in the inner ear of teleost fish and their shape has
been known to vary among several fish populations and stocks, making them very useful in taxonomy,
species identification and to study geographic variations. The package extends previously described
software used for otolith shape analysis by allowing the user to automatically extract closed
contour outlines from a large number of images, perform smoothing to eliminate pixel noise described in Haines and Crampton (2000) <doi:10.1111/1475-4983.00148>,
choose from conducting either a Fourier or wavelet see Gençay et al (2001) <doi:10.1016/S0378-4371(00)00463-5> transform to the outlines and visualize
the mean shape. The output of the package are independent Fourier or wavelet coefficients
which can be directly imported into a wide range of statistical packages in R. The package
might prove useful in studies of any two dimensional objects.

Lisa Anne Libungan

shapeR

Collection and Analysis of Otolith Shape Data

Snaebjorn Palsson

outline.reconstruction.plot function

<dl><dt>outline.rec.list</dt>
<dd>The output from estimate.outline.reconstruction</dd>
<dt>ref.w.level</dt>
<dd>Reference level for graphical purposes. The default is 5 as is the default of shapeR.</dd>
<dt>ref.f.harmonics</dt>
<dd>Reference Fourier harmonize. The default is 12 as is the default in shapeR.</dd>
<dt>max.num.harmonics</dt>
<dd>Maxinum number of Fourier harmonics to be shown</dd>
<dt>...</dt>
<dd>Additional parameters to be passed to 'plot'</dd></dl>

Arguments

Author

Plot outline reconstruction — outline.reconstruction.plot

<dl>

<dt>outline.rec.list</dt>
<dd>The output from estimate.outline.reconstruction</dd>


<dt>ref.w.level</dt>
<dd>Reference level for graphical purposes. The default is 5 as is the default of shapeR.</dd>


<dt>ref.f.harmonics</dt>
<dd>Reference Fourier harmonize. The default is 12 as is the default in shapeR.</dd>


<dt>max.num.harmonics</dt>
<dd>Maxinum number of Fourier harmonics to be shown</dd>


<dt>...</dt>
<dd>Additional parameters to be passed to 'plot'</dd>

</dl>

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outline.reconstruction.plot: Plot outline reconstruction

Description

Usage

Value

Arguments

Author

Examples