/journals.plos.org/plosone/article?id=10.1371/journal.pone.0146166
Emma
~~~~~~~
Emma Sherratt, PhD.
*University Research Fellow*
Department of Genetics and Evolution
School of Biological Sciences
The University of Adelaide
Adelaide, SA 5005
AUSTRALIA
*
Dear Marcos,
1- The functions you need are in base R, not in the geomorph package.
use the function strsplit() to split a character string by any character.
See related functions for alternatives for manipulating character strings.
2- yes. In MorphoJ, choose the dataset in the file tree then go
For 3D surface models, I suggest IDAV Landmark Editor (
http://graphics.idav.ucdavis.edu/research/EvoMorph) or the commercial
version Checkpoint that Dennis mentioned below. Meshlab's pick points
function works. Also digit.fixed() function in geomorph R package depending
on the specimens.
If you
ariate summary, and the
"line" is just an approximation of the trajectory in a multidimensional
space. I think that putting such a line would mislead people and wouldn't
be accurate.
Em
~~~
Emma Sherratt, PhD.
Postdoctoral Researcher in the K
as linked and places
equally distant semis on each curve separately).
Details of geomorph below in my signature, including the extensive help
guide.
Emma
~~~
Emma Sherratt, PhD.
Postdoctoral Researcher in the Keogh Lab
<http://biol
Dear Christopher,
What comes to mind is the option in geomorph's gpagen() function
"PrinAxes". When this option is TRUE, the shape coordinates are aligned by
their principal axes rather than how the configuration was digitized- this
is for visualisation and isn't changing the shape infomration
gt; translate from another language (French "morphométrie", German
> "Morphometrie" etc.).
>
> There would be room for linguistic research here
>
> Best wishes,
> Chris
>
>
> On 08/09/2016 06:01, Emma Sherratt wrote:
>
>> Dear Morphmet-hi
Dear Morphmet-hive mind,
I've been curious for some time about the terms "morphometry" and
"morphometrics" and whether they are in fact interchangeable or quite
distinct. Also, is it related to the difference between phylogeny and
phylogenetics?
Regards,
Emma
--
MORPHMET may be accessed
om this group and stop receiving emails from it, send an
> email to morphmet+unsubscr...@morphometrics.org.
>
>
--
~~~
Emma Sherratt, PhD.
Postdoctoral Researcher in the Keogh Lab
<http://biology-assets.anu.edu.au/hosted_sites/Scott/>
Division
Patrick,
The icon against your "sample" file indicates that the .stl is not being
read as a 3D model but as a coordinate file. You might need to resave it as
a .ply file using meshlab, or something similar.
Emma
~~~~~~~
Emma She
of the previous specimens to see
where that falls.
Emma
~~~
Emma Sherratt, PhD.
Postdoctoral Researcher in the Keogh Lab
<http://biology-assets.anu.edu.au/hosted_sites/Scott/>
Division of Evolution, Ecology & Genetics
Research School of B
d analyses.
Emma
~~~~~~~
Emma Sherratt, PhD.
Postdoctoral Researcher in the Keogh Lab
<http://biology-assets.anu.edu.au/hosted_sites/Scott/>
Division of Evolution, Ecology & Genetics
Research School of Biology
116 Daley Road
The Australian Natio
sep="\n",append=TRUE)
}
else if (dims[2] == 3){
cat(paste(1,dims[1],3,0, "dim=3"),file= ntsfile,sep="\n",append=TRUE)
}
write.table(A ,file= ntsfile,col.names = FALSE, row.names = FALSE,sep="
",append=TRUE)
}
Emma
~~~
of people using AVIZO for
digitising, we can include a function in geomorph.
Regarding a read function writing? Nope, never heard of that.
Em
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Environmental and Rural Science
gt;
> To unsubscribe from this group and stop receiving emails from it, send an
> email to morphmet+unsubscr...@morphometrics.org <javascript:;>.
>
--
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Envir
On Monday, December 15, 2014 at 10:02:39 PM UTC-6, Emma Sherratt wrote:
Dear David and Stefan,
The issue was that the PLY file of David has textures, which our read.ply
function currently does not support. Resaving the file without the texture
information made the file readable.
FYI Stefan
...@morphometrics.org
javascript:_e(%7B%7D,'cvml','morphmet%2bunsubscr...@morphometrics.org');
.
--
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Environmental and Rural Science,
Room L112 Bldg C02,
University of New
regards,
Abel
--
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
To unsubscribe from this group and stop receiving emails from it, send an
email to morphmet+unsubscr...@morphometrics.org javascript:;.
--
~~~
Emma
, we use the 3D array format to specify that the data are
coordinate data, and the 2D matrix for multivariate data, not necessarily
shape data. This allows several of the functions to be used with non-shape,
multivariate datasets.
Emma
~~~
Emma
');
.
--
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Environmental and Rural Science,
Room L112 Bldg C02,
University of New England,
Armidale, NSW, Australia, 2351
Tel: +61 2 6773 5041
email: emma.sherr...@une.edu.au
Twitter: @DrEmSherratt
Dear Edouard,
You can find a comprehensive guide by David Polly
here: http://www.indiana.edu/~g562/Handouts/Collecting%20Landmarks.pdf
And a few tips on digitizing 2D data can be found
here:
or _.
Emma
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Environmental and Rural Science,
Room L112 Bldg C02,
University of New England,
Armidale, NSW, Australia, 2351
Tel: +61 2 6773 5041
email: emma.sherr...@une.edu.au
Twitter
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Environmental and Rural Science,
Room L112 Bldg C02,
University of New England,
Armidale, NSW, Australia, 2351
Tel: +61 2 6773 5041
email: emma.sherr...@une.edu.au
Twitter
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Environmental and Rural Science,
Room L120 Bldg C02,
University of New England,
Armidale, NSW, Australia, 2351
Tel: +61 2 6773 5041
email: emma.sherr...@une.edu.au
Twitter: @DrEmSherratt
click and disply graphs.
Emma
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Environmental and Rural Science,
Room L120 Bldg C02,
University of New England,
Armidale, NSW, Australia, 2351
Tel: +61 2 6773 5041
email
Oh sorry, I think the latter way just shows the group mean from the overall
mean - so you may need to do some cutting and pasting...
Contact Chris Klingenberg, he might have an easier way up his sleeve.
Emma
~~~
Emma Sherratt, PhD.
Lecturer
the
data for the aspects of shape that delimit and discriminate between two or
more groups. Not as reduced axes for use in correlation tests.
Emma
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Environmental and Rural Science
for inspecting the
data for the aspects of shape that delimit and discriminate between two or
more groups. Not as reduced axes for use in correlation tests.
Emma
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School
can discuss how to work with these files.
Emma
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Environmental and Rural Science,
Room L120 Bldg C02,
University of New England,
Armidale, NSW, Australia, 2351
Tel: +61 2 6773
://www.morphometrics.org
To unsubscribe from this group and stop receiving emails from it, send an
email to morphmet+unsubscr...@morphometrics.org
javascript:_e(%7B%7D,'cvml','morphmet%2bunsubscr...@morphometrics.org');
.
--
~~~
Emma Sherratt, PhD.
Lecturer
Hi David,
Turns out my answer went to only you and not this group.
I believe that your ply file has duplicated vertices and so it is not able
to match up the vertex coordinates to the triangles.
Please send me the file so that I can examine it.
Emma
On Monday, 15 December 2014 11:53:17
Dear David and Stefan,
The issue was that the PLY file of David has textures, which our read.ply
function currently does not support. Resaving the file without the texture
information made the file readable.
FYI Stefan, the original file read fine with your vsgImport function, but
only when
');
.
--
~~~
Emma Sherratt, PhD.
Lecturer in Zoology,
Zoology Division, School of Environmental and Rural Science,
Room L118 Bldg C02,
University of New England,
Armidale, NSW, Australia, 2351
Tel: +61 2 6773 5038
email: emma.sherr...@une.edu.au
Caecilians are legless amphibians
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