generateShapeCoefficients

Generates shape variables based on Fourier/wavelet reconstruction. Wavelet coefficients for wavelet. Basic shape parameters are also collected (area, length, width, perimeter).

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

generateShapeCoefficients function

<dl><dt>object</dt>
<dd><code>shapeR</code> object</dd>
<dt>...</dt>
<dd>Additional parameters to be passed to the <code>wd</code> function of the <code>wavethresh</code> package for the wavelet decomposition of the otolith outlines</dd></dl>

Arguments

Lisa Anne Libungan &amp; Snaebjorn Palsson

Author

Get wavelet/Fourier coefficients and basic shape variables — generateShapeCoefficients

<dl>

<dt>object</dt>
<dd><code>shapeR</code> object</dd>


<dt>...</dt>
<dd>Additional parameters to be passed to the <code>wd</code> function of the <code>wavethresh</code> package for the wavelet decomposition of the otolith outlines</dd>

</dl>

generateShapeCoefficients: Get wavelet/Fourier coefficients and basic shape variables

Description

Usage

Value

Arguments

Author

References

See Also

Examples