I am trying to do an analysis of three specimens. I am using semi-landmarks and
having trouble. perhaps someone can point out mt error? these are my results
Generalized Procrustes Analysis
with Partial Procrustes Superimposition
-4 fixed landmarks
12 semilandmarks (sliders)
2-dimensional landmarks
6 GPA iterations to converge
Minimized Bending Energy used
Consensus (mean) Configuration
X Y
[1,] 0.51447153 -0.03794928
[2,] 0.36957021 0.11431610
[3,] -0.11602250 0.19898458
[4,] -0.40489951 0.11095030
[5,] -0.43738229 -0.09965594
[6,] -0.20913543 -0.09698422
[7,] 0.04257626 -0.09131803
[8,] 0.29799009 -0.04811314
it should be three individuals with 4 landmarks and 4 sliders each. i want to
perform PCA on the procrustes coordinates. my code and data are below. Im new
to R and its probably an easy fix im just really confused. any help is greatly
appreciated.
Code: Y <- arrayspecs(coordsrformat, k=2, p= ncol(coordsrformat)/2)
slidermatrix
Y.gpa <- gpagen(Y,curves=slidermatrix)
summary(Y.gpa)
plot(Y.gpa)
Y.gpa <- gpagen(Y,curves=slidermatrix,ProcD=FALSE )
summary(Y.gpa)
plot(Y.gpa)
a<-(Y.gpa$coords)
plotTangentSpace(a)
slider matrix:
before slide after
5 6 7
7 8 1
1 2 3
3 4 5
1 8 7
7 6 5
5 4 3
3 2 1
1 2 3
3 4 5
5 6 7
7 8 1
coordsrformat:
1630 1827 1530 1549 1198 1345 908 1557 833 1840
1027 1895 1223 1907 1417 1887
2767 1081 2633 1581 2139 2047 1693 1753 1535 1159
1841 1067 2151 1009 2437 1071
2956 928 2936 1692 2112 2360 1300 1784 1304 1016
1700 888 2084 832 2480 872
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