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Ian at which level of the code you are getting an error? I am not seeing an=
error message below.=20
If you mean your results are non-sensical, that can be due to a variety of =
reasons beginning from inconsistent ordering of landmarks in samples. Perha=
ps try with minimal options and modification, until you get more familiar w=
ith geomorph and gpagen and its output. Starting with the provided example =
in the ?gpagen and modifying it oo work with your own data would be a good =
start.=20
M
-----Original Message-----
From: Ian F <ijames...@gmail.com>=20
Sent: Wednesday, August 1, 2018 11:12 AM
To: MORPHMET <morphmet@morphometrics.org>
Subject: [MORPHMET] Trouble with 2-D morphomeric analysis in geomorph
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 r=
esults
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. I=
m new to R and its probably an easy fix im just really confused. any help i=
s greatly appreciated. =20
Code: Y <- arrayspecs(coordsrformat, k=3D2, p=3D ncol(coordsrformat)/2)
slidermatrix
Y.gpa <- gpagen(Y,curves=3Dslidermatrix) =20
summary(Y.gpa)
plot(Y.gpa)
Y.gpa <- gpagen(Y,curves=3Dslidermatrix,ProcD=3DFALSE ) =20
summary(Y.gpa)
plot(Y.gpa)
a<-(Y.gpa$coords)
plotTangentSpace(a)=20
slider matrix: =20
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 18=
87=20
2767 1081 2633 1581 2139 2047 1693 1753 1535 1159
1841 1067 2151 1009 2437 =
1071=20
2956 928 2936 1692 2112 2360 1300 1784 1304 1016
1700 888 2084 832 2480 872
--=20
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
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