also implemented in NTSYSpc, which is also
> user-friendly.
>
> You probably want to read a bit on the methodology to see if it fits what
> you plan to do and its potential shortcomings.
>
> I hope this helps.
>
> Carmelo
>
>
>
> On 15/03/2018 12:14, 'Tina
user-friendly.
You probably want to read a bit on the methodology to see if it fits
what you plan to do and its potential shortcomings.
I hope this helps.
Carmelo
On 15/03/2018 12:14, 'Tina Klenovšek' via MORPHMET wrote:
Thanks to all, Javier, Vincent, William, Joanna and
species.
In which user friendly program (like MorphoJ ☺) can I analyse outline data and
visualize variability?
Thank you again,
Tina
From: Joanna Lenarczyk [mailto:j.kowal...@botany.pl]
Sent: Thursday, March 15, 2018 10:21 AM
To: Tina Klenovšek
Subject: Re: [MORPHMET] digitizing very variable leaves
. Ecology & Evolution
Research Professor, Anthropology
Stony Brook University
From: Tina Klenovšek
Sent: Wednesday, March 14, 2018 12:28 AM
To: f.james.rohlf
Cc: morphmet@morphometrics.org
Subject: RE: [MORPHMET] digitizing very variable leaves
Thanks to everyone who answered.
Dea
al message
From: Carmelo Fruciano
Date: 3/12/18 9:51 PM (GMT-10:00)
To: MORPHMET
Subject: Re: ***SPAM*** [MORPHMET] Re: Digitizing landmarks on live larvae
Dear Avi,
I guess it's hard to formulate any rule of thumb.
Some analyses might not be defined if the number of variables excee
elo Fruciano >
> Date: 3/12/18 9:51 PM (GMT-10:00)
> To: MORPHMET >
> Subject: Re: ***SPAM*** [MORPHMET] Re: Digitizing landmarks on live larvae
>
> Dear Avi,
>
> I guess it's hard to formulate any rule of thumb.
>
> Some analyses might not be defined if the number
: Wednesday, March 14, 2018 3:59 AM
To: Tina Klenovšek
Subject: Re: [MORPHMET] digitizing very variable leaves
An assumption of the usual GMM methods is that shape variation is "small". I
think these leaves exceed this quite a bit! Another problem is landmarks. How
to match leaves with a
sage From: Carmelo Fruciano
Date: 3/12/18 9:51 PM (GMT-10:00) To: MORPHMET
Subject: Re: ***SPAM*** [MORPHMET] Re: Digitizing landmarks on live larvae
Dear Avi,
I guess it's hard to formulate any rule of thumb.
Some analyses might not be defined if the number of
rnal of Fish Biology)
approach because it's more flexible (less stringent assumptions,
which
obviously doesn't mean assumption-free) and therefore more generally
applicable. But, of course, the approach in tpsUtil can be a great
solution if it's appropriate to your d
> - that you can consistently identify those points along an hypothetical
> line (which you would remove after the unbending)
> - that your arching is well represented by the chosen function
>
> You are the best judge on whether these assumptions are satisfied in
> your case or no
e more generally
applicable. But, of course, the approach in tpsUtil can be a great
solution if it's appropriate to your data.
Best,
Carmelo
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complete set of R functions for all of this is available upon request.
All the best
Paolo
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nks in advance,
>>> Avi
>>>
>>>
>>> On Wednesday, February 28, 2018 at 7:38:22 PM UTC+2, Avi Koplovich wrote:
>>>>
>>>> Hi,
>>>> I've started a new project and came to the point of marking fixed and
>>
se of the posture of the
>>> larvae during photographing (sometimes raising it's tail). So in order to
>>> reduce the noise by the animal posture, I thought it would be helpful to
>>> separate head and tail as was done in Levis et. al. 2016, Biol. J. Linn.
>>
at will make
> it easier to select vertices in R? Also, I realize that it the documentation
> for geomorph uses a mesh with less than 30,000 vertices, but I lose most of
> the useful information when I drop below 120k.
>
>
> Any help would be greatly appreciated,
>
>
&g
ndmark 40 as fixed landmark since it is restricted
>> by both x (side line) and y (dorsal connection of the tail fin). Can/Should
>> I use the eye as a fixed landmark for the head (i.e. can it interfere with
>> interpreting the head contour)?
>> Here is an example to show what I mean:
the head (i.e. can it interfere with
> interpreting the head contour)?
> Here is an example to show what I mean:
>
> https://drive.google.com/file/d/1iO7lCN3ZCtV7DF9vsczkb_EYoSli1Orr/view?usp=sharing
>
> I'll be happy if you can advise on that.
> Thank you,
> Avi
-
he models as .scn
> files, but I'm having trouble importing them into Geomagic to fuse. Does
> anyone have any suggestions to how I can do this?
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> ---
> You received this message because you are
UI, and I feel like
Geomagic has much more capabilities. ScanStudio exports the models as .scn
files, but I'm having trouble importing them into Geomagic to fuse. Does anyone
have any suggestions to how I can do this?
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Soledad De Esteban-Trivigno
Institut Català de Paleontologia Miquel Crusafont (ICP)
Campus de la Universitat Autònoma de Barcelona
Cerdanyola del Vallès (Barcelona). Spain
www.icp.cat
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Stony Brook University
-Original Message-
From: Avi Koplovich [mailto:netbird@gmail.com ]
Sent: Tuesday, February 27, 2018 3:09 AM
To: MORPHMET >
Subject: [MORPHMET] Digitizing landmarks on live larvae
Hi,
I've started a n
.
F. James Rohlf, Distinguished Professor, Emeritus. Ecology & Evolution
Research Professor, Anthropology
Stony Brook University
From: Avi Koplovich [mailto:netbird.porta...@gmail.com]
Sent: Wednesday, February 28, 2018 10:31 AM
To: MORPHMET
Cc: netbird.porta...@gmail
riginal Message-
> From: Avi Koplovich [mailto:netbird@gmail.com ]
> Sent: Tuesday, February 27, 2018 3:09 AM
> To: MORPHMET >
> Subject: [MORPHMET] Digitizing landmarks on live larvae
>
> Hi,
> I've started a new project and came to the point of marking
a...@gmail.com]
Sent: Tuesday, February 27, 2018 3:09 AM
To: MORPHMET
Subject: [MORPHMET] Digitizing landmarks on live larvae
Hi,
I've started a new project and came to the point of marking fixed and semi
landmarks.
Not all pictures are satisfying, mostly because of the posture of the larvae
d
ve.google.com/file/d/1iO7lCN3ZCtV7DF9vsczkb_EYoSli1Orr/view?usp=sharing
I'll be happy if you can advise on that.
Thank you,
Avi
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, Distinguished Professor, Emeritus. Ecology & Evolution
Research Professor, Anthropology
Stony Brook University
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pru...@uni-koeln.de
Zoological Institute, Biocenter
University of Cologne
Zülpicher Straße 47b
50674 Cologne
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interested in visiting the historical center of Bordeaux, a
mid-congress guided visit will be organized.
The deadline for abstract submission is March 30^th 2018.
We look forward to seeing you in Bordeaux!
The organizing committee of the 10^th SMEF
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tel: 33 (0)1 71 21 47 35 fax : 33 (0)1 40 79 33 14
Site web : http://www2.mnhn.fr/archeozoo-archeobota/
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stitching 3-4 (or more) acquisition together to get a decent coverage.
M
From: Giada Giacomini [mailto:giada.giacomin...@gmail.com]
Sent: Tuesday, February 13, 2018 1:58 AM
To: CARLOS ALBERTO CARRION
Cc: MORPHMET
Subject: Re: [MORPHMET] Portable scanner for 3D models
Hello Carlos,
in my
ALBERTO CARRION <
lophosto...@gmail.com> wrote:
> Hi ,
> I am looking forward to create 3D models of small bats skull ( genus
> Myotis). Anyone has a good insight on portable 3d scanner for this task
>
> Thanks
>
> --
> MORPHMET may be accessed via its webpage at http
Hi ,
I am looking forward to create 3D models of small bats skull ( genus Myotis).
Anyone has a good insight on portable 3d scanner for this task
Thanks
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mes Rohlf, Distinguished Professor, Emeritus. Ecology & Evolution
>
> Research Professor, Anthropology
>
> Stony Brook University
>
>
>
> *From:* Waira Saravia [mailto:w.sm...@gmail.com]
> *Sent:* Friday, February 2, 2018 10:18 AM
> *To:* morphmet@morphometrics.org
avia [mailto:w.sm...@gmail.com]
Sent: Friday, February 2, 2018 10:18 AM
To: morphmet@morphometrics.org
Subject: [MORPHMET] Problems importing file in TPSrelw
Dear all,
I'm a bachelor student and I'm working with a 2D dataset from roedent skull.
I'm trying to analyze my dataset
sity
From: Ritu YADAV [mailto:y.ritik...@gmail.com]
Sent: Friday, January 26, 2018 10:31 PM
To: MORPHMET
Subject: [MORPHMET] problem with tps Relw
hllo every one,
i have problem in uploading files on Tps Relw, i cant select more than one
file. I dont know how to select more than one f
"*. I thought that the problem was on my
laptop, but running the same file in other computer appears the same
message. What should I do?
Best regards,
Waira Machida
Universidade de Brasília (UnB)
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hllo every one,
i have problem in uploading files on Tps Relw, i cant select more than one
file. I dont know how to select more than one files. If any one knows then
plzz help me.
With regards
Ritu yadav
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For more information, please visit our website:
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:10.1038/s41467-017-02788-3
Best wishes,
Yoland Savriama
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h mandible: a deadly
ecomorphological specialization. In press. Palaeogeography,
Palaeoclimatology, Palaeoecology.
https://doi.org/10.1016/j.palaeo.2018.01.034
Regards
Paolo
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relevant to
perform PLS for only two populations (when only PLS1 is calculated)?
Best regards,
Milena
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forum/pr-statistics-post-course-forum
prstatistics.com/organiser/oliver-hooker/
6 Hope Park Crescent
Edinburgh
EH8 9NA
+44 (0) 7966500340
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gt;> Department of Ecology, Evolution, and Organismal Biology
>>
>>Department of Statistics
>>
>> Iowa State University
>>
>> www.public.iastate.edu/~dcadams/
>>
>> phone: 515-294-3834 <(515)%20294-3834>
>>
>>
>>
>&g
Evolution, and Organismal Biology
>
>Department of Statistics
>
> Iowa State University
>
> www.public.iastate.edu/~dcadams/
>
> phone: 515-294-3834 <(515)%20294-3834>
>
>
>
> *From:* katz.w...@gmail.com [mailto:katz.w...@gmail.com] *On Behalf Of *Dav
katz.w...@gmail.com] On Behalf Of David Katz
Sent: Wednesday, January 24, 2018 11:48 AM
To: Adams, Dean [EEOBS]
Cc: Christy Anna Hipsley ; MORPHMET
Subject: Re: [MORPHMET] relative positions of landmark partitions in
integration tests - how important?
I read Christy's question a little diffe
te.edu/~dcadams/
>
> phone: 515-294-3834 <(515)%20294-3834>
>
>
>
> *From:* Christy Anna Hipsley [mailto:chips...@unimelb.edu.au]
> *Sent:* Tuesday, January 23, 2018 9:34 PM
> *To:* MORPHMET
> *Subject:* [MORPHMET] relative positions of landmark partitions in
> in
uesday, January 23, 2018 9:34 PM
To: MORPHMET
Subject: [MORPHMET] relative positions of landmark partitions in integration
tests - how important?
Hi all,
I'm trying to run an integration test in geomorph, or rather phylo.integration
on 2 sets of Procrustes aligned coordinates for cranium
don't get any error
message so it is difficult for me to figure out what I am doing wrong. Can any
one tell me how to clean up my data so that I can do a fit on it?
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Research, 84, pp. 483-500
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differences among groups but not to the overall shape variation
in the sample.
Thanks in advance for any insights you may have with regard to this issue.
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9.999e-05
Permutation: free
Number of permutations: 1
If anyone has any idea of why this could be happening or how to fix it
that would be greatly appreciated.
Thanks
Callie Diduck
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> If anyone has any idea of why this could be happening or how to fix it
> that would be greatly appreciated.
>
> Thanks
>
> Callie Diduck
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> ---
> You received this message because you a
Permutation: free
Number of permutations: 1
If anyone has any idea of why this could be happening or how to fix it that
would be greatly appreciated.
Thanks
Callie Diduck
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> Here is the full list of our courses and Workshops:
> https://www.physalia-courses.org/courses-workshops/
>
> Many thanks for your kind attention.
> Best regards,
>
>
> Carlo Pecoraro, Ph.D
>
> Physalia-courses DIRECTOR
>
> i...@physalia-courses.org
gt;
>>
>>
>> Dr. Dean C. Adams
>>
>> Professor
>>
>> Department of Ecology, Evolution, and Organismal Biology
>>
>>Department of Statistics
>>
>> Iowa State University
>>
>> www.public.iastate.edu/~dcadams/
>&g
Spring 2018 office hours: Tues/Thurs 9-9:30, 3:00-4:15
Wed 10:00-12:15
~
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na). Spain
www.icp.cat
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; Dean
>
>
>
> Dr. Dean C. Adams
>
> Professor
>
> Department of Ecology, Evolution, and Organismal Biology
>
>Department of Statistics
>
> Iowa State University
>
> www.public.iastate.edu/~dcadams/
>
> phone: 515-294-3834 <(515)%20294-3834>
ay to do this without summarizing each group to a mean? Any
> help would be greatly appreciated!
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> <http://www.morphometrics.org/>
> ---
> You received this message because you are subscribe
rature,
> and would like to know if anyone could recommend to me material that
> clearly lays out the theory of evolutionary allometry, as well as its
> practical application.
>
>
> Kind regards
>
> Ariella Rink
>
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help would be greatly appreciated!
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phone: 515-294-3834
From: Anderson Feijo [mailto:andefe...@gmail.com]
Sent: Friday, December 29, 2017 3:19 AM
To: MORPHMET
Subject: [MORPHMET] Doubt about scalling photos
Hi everyone,
I am starting a new project using GM which I will work with groups with
different
any suggestion.
>
> All the best and Happy 2018!
>
> Anderson
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> <http://www.morphometrics.org/>
> ---
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> &qu
on photos taken
from different distances of the camera to the object. I have attached here
the tps file (10 copies of the same skull, five at ~15cm and five at
~30cm). I would be very grateful for any suggestion.
All the best and Happy 2018!
Anderson
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Ariella Rink
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To: MORPHMET
Subject: [MORPHMET] DA value calculation
Dear all,
Question 1: If I have a set of specimens which are object symmetry, how could I
calculate directional asymmetry (DA) score for this set of specimen? I noted
that after using bilat.symm function in geomorph, DA.component could be
find some more *detailed
mathematical definition of Procrustes Variance*?
Thank you very much for your help!
Best regards,
Patrick Wen
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:00 PM
To: MORPHMET
Subject: [MORPHMET] Issues with subsetting nts array with classifiers and
plotTangentSpace visualization
Hi,
I'm using Geomorph to analyze a 3D landmark dataset. I'm having a number of
issues both in subsetting my array and visualizing these data after Procrustes
Department of Statistics
Iowa State University
www.public.iastate.edu/~dcadams/<http://www.public.iastate.edu/~dcadams/>
phone: 515-294-3834
From: Phillip Skipwith [mailto:pskipw...@gmail.com]
Sent: Friday, January 5, 2018 4:00 PM
To: MORPHMET
Subject: [MORPHMET] Issues with subsetting nts arra
RUE, legend = TRUE, axis1 = 1, axis2 = 2, warpgrids = TRUE)
# See attachment for confusing plot.
Thanks in advance,
Skip
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> *Sent:* Friday, December 15, 2017 8:37 AM
> *To:* MORPHMET >
> *Subject:* [MORPHMET] Issue with digit.fixed on 3D mesh geomorph
>
>
>
> Hi Everyone,
>
>
>
> First: I apologize if this is a double posting.
>
>
>
> I'm new to 3D geometric
couple times
> (not just measuring the same object repeatedly in different
> magnifications), or something along those lines.
>
>
>
> There is a really a lot of literature on this. But you need to use a
> statistics based framework, not EDA tools like PCA to answer this.
>
>
>
rson Feijo [mailto:andefe...@gmail.com]
*Sent:* Monday, January 1, 2018 11:02 PM
*To:* Murat Maga
*Cc:* MORPHMET
*Subject:* Re: [MORPHMET] Doubt Scaling photos
Dear Murat,
Thank you very much for your email and time for explore my dataset. To
perform this simple experiment, given the aim was to e
framework, not EDA tools like PCA to answer this.
M
From: Anderson Feijo [mailto:andefe...@gmail.com]
Sent: Monday, January 1, 2018 11:02 PM
To: Murat Maga
Cc: MORPHMET
Subject: Re: [MORPHMET] Doubt Scaling photos
Dear Murat,
Thank you very much for your email and time for explore my dataset. To
s://www.ncbi.nlm.nih.gov/pubmed/27038025
>
>
>
> Is there a reason you are not using a single magnification level for all
> your samples?
>
> M
>
>
>
>
>
> *From:* Anderson Feijo [mailto:andefe...@gmail.com]
> *Sent:* Friday, December 29, 2017 1:35 AM
> *To:* MO
there a reason you are not using a single magnification level for all your
samples?
M
[cid:image001.jpg@01D38100.CDDD1E80]
From: Anderson Feijo [mailto:andefe...@gmail.com]
Sent: Friday, December 29, 2017 1:35 AM
To: MORPHMET
Subject: [MORPHMET] Doubt Scaling photos
Hi everyone,
I am starting
copies of the same skull, 5 at ~15 cm and 5 at ~30cm). My question is how
can I combine two set of 2d landmarks based on photos taken from different
distance to the object. I would greatly appreciate any suggestion.
All the Best and Happy 2018!
Anderson
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Paleontológica Argentina* (PE-APA). 17(2): 17(2): 58–74
Best regards
Guillermo
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> <https://lh3.googleusercontent.com/-id2J2QGOwC4/Wj2Es42rclI/AAAAA0U/dYaVjK7IMPIY1oZsXgFWeeolNwG2wHvKwCLcBGAs/s1600/1.jpg>
>
> <https://lh3.googleusercontent.com/-Q3DoSe9ZjEU/Wj2Ew86zYdI/A0Y/lbEi_I4bEXEOaIcvkVucFgUxWOLv_8q4QCLcBGAs/s1600/2.jpg>
>
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Rohlf, Distinguished Professor, Emeritus. Ecology & Evolution
Research Professor, Anthropology
Stony Brook University
From: Natalia Siomava [mailto:nat.siom...@gmail.com]
Sent: Friday, December 22, 2017 12:20 PM
To: MORPHMET
Subject: [MORPHMET] Problem creating sliding semilandmarks
o wrong? I will appreciate any help
and/or suggestions.
Thank you,
Best,
Natalia
<https://lh3.googleusercontent.com/-id2J2QGOwC4/Wj2Es42rclI/A0U/dYaVjK7IMPIY1oZsXgFWeeolNwG2wHvKwCLcBGAs/s1600/1.jpg>
<https://lh3.googleusercontent.com/-Q3DoSe9ZjEU/Wj2Ew86zYdI/A0
rics. I have generated
> PCA plots for my data. However, when i try to generate CVA plots, i get
> this warning; kindly assist.
>
>
>
>
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
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> You received this message because you ar
the images.
F. James Rohlf, Distinguished Professor, Emeritus. Ecology & Evolution
Research Professor, Anthropology
Stony Brook University
-Original Message-
From: Lisa Krendl [mailto:lisa.maria.kre...@gmail.com]
Sent: Tuesday, December 12, 2017 1:22 AM
To: MOR
: Phillip Skipwith [mailto:pskipw...@gmail.com]
Sent: Friday, December 15, 2017 8:37 AM
To: MORPHMET
Subject: [MORPHMET] Issue with digit.fixed on 3D mesh geomorph
Hi Everyone,
First: I apologize if this is a double posting.
I'm new to 3D geometric morphometrics, so this issue might turn o
high resolution mesh
with quadratic decimation, and then export the ASCII ply directly from
Meshlab without fiddling with the settings. Is this right?
Any help would be greatly appreciated.
Best,
Skip
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MORPHMET may be accessed via its webpage at http://www.morphometrics.org
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You receiv
tch across the
whole user interface of the program and when I try to zoom in they get very
pixelated.
For further research I want to use the reflex camera. Do you know how I could
solve the problem?
Your help is very much appreciated. Thank you very much in advance.
Kind regards,
Lisa Krendl
--
most of the useful information
when I drop below 120k.
Any help would be greatly appreciated,
Skip
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ord Road
Manchester M13 9PT
United Kingdom
Web site: http://www.flywings.org.uk
E-mail: c...@manchester.ac.uk
Phone: +44 161 2753899
Skype: chris_klingenberg
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3899
Skype: chris_klingenberg
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s likely that I'm
> overlooking something very simple, but after spinning my wheels on this for a
> few days I wanted to reach out for advice. Any help would be greatly
> appreciated!
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> --
ucci [mailto:morucci...@gmail.com]
Sent: Wednesday, December 6, 2017 8:16 PM
To: MORPHMET
Subject: [MORPHMET] Issue with sliders file data
Hi There,
I recently decided to reuse some data from an old 2D GM project on swine tooth
morphology. When I went to rerun some of my data using my project's
iders file. This also did not work.
I'm not very experienced with R or the TPS suites, so it's likely that I'm
overlooking something very simple, but after spinning my wheels on this for a
few days I wanted to reach out for advice. Any help would be greatly
appreciated!
--
MOR
Journal of Primatology*, 79(12). DOI:
10.1002/ajp.22721
All the best
Paolo
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quot;, "arrows"), choices = c(1, 2), truemean =
FALSE)
## S3 method for class 'procrustes'
residuals(object)
## S3 method for class 'procrustes'
fitted(object, truemean = TRUE,)
## S3 method for class 'procrustes'
predict(object, newdata, truem
in / Institute for Advanced Study
Wallotstr. 19, 14193 Berlin
Tel. +49 - 30 - 89 001 -
255http://www.wiko-berlin.de/institution/college-for-life-sciences/
<http://www.wiko-berlin.de/institution/college-for-life-sciences/>
**//___^
**//___^
**//___^
**//___^
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MORPHMET may be accessed via its w
empt to re-landmark my OriginScan in Geomorph- all to no luck. I
> continue to get this error even when I attempt to warp along PCs.
>
> Any suggestions on how I can get this work? I feel that I am missing
> something basic here, but have been backwards and forwards through
Any suggestions on how I can get this work? I feel that I am missing
something basic here, but have been backwards and forwards through the
Geomorph manual for a couple of weeks now to no avail.
Thanks,
Ashleigh
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