[MORPHMET] Portable 3D scanner suggetsions

2017-01-19 Thread Miguel Eduardo Delgado Burbano 
Dear all

 I am planning to obtain 3D surface models from different museum
colletions, so I need a 3D portable hardware  (and associated software).
Does anyone have suggestions of models and prices they would recommend?

best regards

Miguel

-- 
*
Miguel Delgado PhD
CONICET-División Antropología.
Facultad de Ciencias Naturales y Museo.
Universidad Nacional de La Plata
Paseo del Bosque s/n. La Plata 1900. Argentina
Cel: 5492216795916. Fax: 54 221 4257527
https://unlp.academia.edu/DelgadoMiguel
http://www.cearqueologia.com.ar/
E-mail: medelg...@fcnym.unlp.edu.ar
*

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org.

RE: [MORPHMET] Open Access Repositories for GMM data and 3D models

2017-01-19 Thread Pepijn Kamminga 
Dear Ashleigh,

I'm currently working with Figshare, a free open access repository, for my
own CT and 3D model data. On Figshare you get 20 GB of free space and you
can find already many studies using 3D objects and GMM data on Figshare.

Kind regards,

Pepijn Kamminga
PhD candidate
Naturalis Biodiversity Center, the Netherlands

Op 17 jan. 2017 18:58 schreef "Robert Z. Selden, Jr." :

> Maybe look into Zenodo @ CERN? I've been using it for a while now, and
> have no complaints. Best, Zac
>
>
>
> “The absence of evidence is not evidence of absence.” – Carl Sagan, The
> Demon-Haunted World: Science as a Candle in the Dark
>
> Robert Z. Selden Jr., Ph.D., R.P.A. | Research Associate
> Center for Regional Heritage Research
> Stephen F. Austin State University
> Ph: 936.615.9665 | Email: selden...@sfasu.edu
>
> The views and opinions expressed in this message are my own and do not
> necessarily reflect the views and opinions of Stephen F. Austin State
> University, its Board of Regents, or the State of Texas. This electronic
> transmission (including any attached document or file) is confidential and
> may be legally privileged. This email message is intended for the sole use
> of the individual(s) to whom it is addressed. Any further distribution or
> copying of this message is strictly prohibited.
>
> 
> From: Eric Delson [eric.del...@lehman.cuny.edu]
> Sent: Tuesday, January 17, 2017 11:06 AM
> To: ashleigh.haruda; Morphmet Discussion Group
> Subject: Re: [MORPHMET] Open Access Repositories for GMM data and 3D models
>
> Ashleigh, the best open-access repository for 3D models is
> morphosource.org  They do not take GM data. My own site primo.nycep.org<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__primo.nycep.
> org&d=AwQFaQ&c=2X_btuPRWkGwRX26NHIotw&r=BzjivF1QeBfI_
> 3LA2VUN9ft9kB36GKxt8Ke21CMTTJU&m=a4LqVRMfclPa7VLxpLJoyRFmaebnjP
> m2ETlOu38txvI&s=p2Zrs65FXkNiJq1F1vZohFA6hvBFCSDOm9wZUYpF9M0&e=> has our
> own GM data, but we don't accept random contributions (if you happen to
> work on primates, we could discuss this offline). I am willing to provide
> access to our underlying code (now being upgraded) if you want to set up
> your own GM source, that does not require much in the way of storage or
> expense.
>
> I am not sure what you mean about pricing. Open-access usually implies no
> charges.
>
> Eric Delson
> Director, New York Consortium in Evolutionary Primatology and NYCEP
> Morphometrics Group
> Professor of Anthropology, CUNY;
> Research Associate, American Museum of Natural History
> eric.del...@lehman.cuny.edu
> http://www.nycep.org/ed v2/url?u=http-3A__www.nycep.org_ed&d=AwMFaQ&c=2X_btuPRWkGwRX26NHIotw&r=
> BzjivF1QeBfI_3LA2VUN9ft9kB36GKxt8Ke21CMTTJU&m=
> a4LqVRMfclPa7VLxpLJoyRFmaebnjPm2ETlOu38txvI&s=
> DYoMEdkvRmd7Bdf6u9Zb8YwjvBXQdGkgO8vZraPgRRg&e=>
>
> On 1/16/2017 12:10 PM, ashleigh.haruda wrote:
> Dear All,
>
> I've been investigating open access repositories to deposit both 3D models
> as well as GMM data and have been struggling to find any which offer
> built-in support and pricing for these types of data. I work mainly with
> zooarchaeological specimens, so I am most familiar with archaeological
> repositories such as Open Context and ADS. Does anyone have any other
> suggestions for good open access sites? I'm particularly interested in
> those which already have support in place, without having to create
> customized plans for acquisition and pricing.
>
> Cheers,
>
> Ashleigh
> Ashleigh Haruda, Ph.D.
>
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org ttps://urldefense.proofpoint.com/v2/url?u=http-3A__www.
> morphometrics.org&d=AwMFaQ&c=2X_btuPRWkGwRX26NHIotw&r=BzjivF1QeBfI_
> 3LA2VUN9ft9kB36GKxt8Ke21CMTTJU&m=a4LqVRMfclPa7VLxpLJoyRFmaebnjP
> m2ETlOu38txvI&s=RdbRvEaNYT6pyq4jbrcyJmCy5QNQOfC2DuhsmYRclh8&e=>
> ---
> You received this message because you are subscribed to the Google Groups
> "MORPHMET" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to morphmet+unsubscr...@morphometrics.org met+unsubscr...@morphometrics.org>.
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> ---
> You received this message because you are subscribed to the Google Groups
> "MORPHMET" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to morphmet+unsubscr...@morphometrics.org.
>
>

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org.

[MORPHMET] tpsUtil update

2017-01-19 Thread F. James Rohlf 
I have just uploaded version 1.71 of tpsUtil to the 

http://life.bio.sunysb.edu/morph

server. 

 

It adds better error messages to handle the cases where the decimal
separator character in the data does not match the option set in the
software.

 



F. James Rohlf, Distinguished Professor, Emeritus. Ecology & Evolution

Research Professor, Anthropology

Stony Brook University

 

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org.

RE: [MORPHMET] eliminating the effect of population differences

2017-01-19 Thread F. James Rohlf 
Is the assumption that these are all provide estimates of the same covariance 
matrix? If so, one could test for homogeneity of covariance matrices and then 
compute a common (i.e., average) covariance matrix. The test will require 
adequate sample sizes (more samples within each population than the number of 
shape variables).

 



F. James Rohlf, Distinguished Professor, Emeritus. Ecology & Evolution

Research Professor, Anthropology

Stony Brook University

 

From: Ariadne Schulz [mailto:ariadne.sch...@gmail.com] 
Sent: Wednesday, January 18, 2017 10:27 AM
To: Elahe 
Cc: MORPHMET 
Subject: Re: [MORPHMET] eliminating the effect of population differences

 

I would like to hear any responses to this as well. I did something similar and 
I wasn't sure how to approach this question. In future studies I would like to 
address precisely this issue. My inclination would be that first you would want 
to determine how much morphological variation you're getting between sites. You 
could then look at sexual dimorphism within each site and/or you could look at 
variation of only females and only males over all sites. But this is all rather 
clunky and does not eliminate any interpopulation variation. If anyone has 
already proposed or can propose a better methodology I'd be interested in it as 
well.

Best,

Ari

 

On Wed, Jan 18, 2017 at 5:29 PM, Elahe mailto:ellie.parv...@gmail.com> > wrote:

Dear all,

 

I have pooled samples from 7 different populations of one species in order to 
study the allometric growth and sexual dimorphism in that species. As different 
populations may have subtle differences in terms of body dimensions with each 
other, I want to remove their effects. 

Can anyone suggest a way to eliminate population effects and maybe finding some 
residuals that are homogeneous and can be used for further analyses?

 

I would appreciate any helps :)

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org 
 .

 

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org 
 .

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org.

Re: [MORPHMET] Open Access Repositories for GMM data and 3D models

2017-01-19 Thread Thomas O'Mahoney 
I would second Morphosource and Zenodo. Both are publicly funded nd the
sort of data you probably have would be no problem for them=colleagues have
deposited whole MicroCT datasets on both with no problem. Morphosource will
only currently take scan data, not collected landmark data.
 Figshare is also good but is a private company with the caveats as to
long-term sustainability that this entails, but your institution may have a
pricing plan which means that you can deposit over the standard maximum .
All 3 will give you a DOI for your data, so it should be easy to track use
as well as not having to worry when a hyperlink changes.
To clarify for non-UK based people, the ADS charges for deposition of data
as it guarantees long-term curation and migration to newer file formats as
old ones become obsolete (The charges fund the site, and it does a lot of
dissemination of commercial archaeological reports this way).
Best,
Tom O'Mahoney
PhD Candidate, University of Manchester.

On 17 January 2017 at 17:06, Eric Delson 
wrote:

> Ashleigh, the best open-access repository for 3D models is
> morphosource.org  They do not take GM data. My own site primo.nycep.org
> has our own GM data, but we don't accept random contributions (if you
> happen to work on primates, we could discuss this offline). I am willing to
> provide access to our underlying code (now being upgraded) if you want to
> set up your own GM source, that does not require much in the way of storage
> or expense.
>
> I am not sure what you mean about pricing. Open-access usually implies no
> charges.
>
> Eric Delson
>
> Director, New York Consortium in Evolutionary Primatology and NYCEP
> Morphometrics Group
>
> Professor of Anthropology, CUNY;
>
> Research Associate, American Museum of Natural History
>
> eric.del...@lehman.cuny.edu
>
> http://www.nycep.org/ed
>
>
> On 1/16/2017 12:10 PM, ashleigh.haruda wrote:
>
> Dear All,
>
> I've been investigating open access repositories to deposit both 3D models
> as well as GMM data and have been struggling to find any which offer
> built-in support and pricing for these types of data. I work mainly with
> zooarchaeological specimens, so I am most familiar with archaeological
> repositories such as Open Context and ADS. Does anyone have any other
> suggestions for good open access sites? I'm particularly interested in
> those which already have support in place, without having to create
> customized plans for acquisition and pricing.
>
> Cheers,
>
> Ashleigh
> Ashleigh Haruda, Ph.D.
>
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> ---
> You received this message because you are subscribed to the Google Groups
> "MORPHMET" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to morphmet+unsubscr...@morphometrics.org.
>

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org.

Re: [MORPHMET] Portable 3D scanner suggetsions

2017-01-19 Thread Thomas O'Mahoney 
Dear Miguel,
This was discussed a few months ago. The popular models at the moment are
the LMI HDi series and the Artec Spider and Eva series. All start at around
$15k, depending on what you buy. All give very good data and all have very
well written software, much of which can also be scripted for
post-processing.

Best,
Tom O'Mahoney
PhD Candidate, University of Manchester.

On 19 January 2017 at 14:06, Miguel Eduardo Delgado Burbano <
mdelgadoburb...@gmail.com> wrote:

> Dear all
>
>  I am planning to obtain 3D surface models from different museum
> colletions, so I need a 3D portable hardware  (and associated software).
> Does anyone have suggestions of models and prices they would recommend?
>
> best regards
>
> Miguel
>
> --
> *
> Miguel Delgado PhD
> CONICET-División Antropología.
> Facultad de Ciencias Naturales y Museo.
> Universidad Nacional de La Plata
> Paseo del Bosque s/n. La Plata 1900. Argentina
> Cel: 5492216795916. Fax: 54 221 4257527
> https://unlp.academia.edu/DelgadoMiguel
> http://www.cearqueologia.com.ar/
> E-mail: medelg...@fcnym.unlp.edu.ar
> *
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> ---
> You received this message because you are subscribed to the Google Groups
> "MORPHMET" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to morphmet+unsubscr...@morphometrics.org.
>

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org.

RE: [MORPHMET] eliminating the effect of population differences

2017-01-19 Thread Mark Belk 
What you describe – samples from multiple populations – is best considered as a 
random effect in a typical generalized linear model format.  You have randomly 
sampled some populations from all of those that might be available.  If I 
understand your data correctly, to evaluate allometry, use a mixed model 
approach where some trait measurement is the response variable and some measure 
of body size would be the predictor variable, then population would be included 
as a random effect in the model.  This structure has the advantage of 
accounting for and adjusting for covariation among populations before the fixed 
effect is evaluated.  Appropriately crafted mixed models can rigorously account 
for a range of complicated covariance structures within the context of one 
model.  Several examples of the use of mixed models in ecology and evolution 
can be found in the literature.
Hope that helps,

Mark

Mark C. Belk, Professor of Biology
Brigham Young University
Editor, Western North American Naturalist
801-422-4154

From: Ariadne Schulz [mailto:ariadne.sch...@gmail.com]
Sent: Wednesday, January 18, 2017 1:27 PM
To: Elahe
Cc: MORPHMET
Subject: Re: [MORPHMET] eliminating the effect of population differences

I would like to hear any responses to this as well. I did something similar and 
I wasn't sure how to approach this question. In future studies I would like to 
address precisely this issue. My inclination would be that first you would want 
to determine how much morphological variation you're getting between sites. You 
could then look at sexual dimorphism within each site and/or you could look at 
variation of only females and only males over all sites. But this is all rather 
clunky and does not eliminate any interpopulation variation. If anyone has 
already proposed or can propose a better methodology I'd be interested in it as 
well.
Best,
Ari

On Wed, Jan 18, 2017 at 5:29 PM, Elahe 
mailto:ellie.parv...@gmail.com>> wrote:
Dear all,

I have pooled samples from 7 different populations of one species in order to 
study the allometric growth and sexual dimorphism in that species. As different 
populations may have subtle differences in terms of body dimensions with each 
other, I want to remove their effects.
Can anyone suggest a way to eliminate population effects and maybe finding some 
residuals that are homogeneous and can be used for further analyses?

I would appreciate any helps :)
--
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
---
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to 
morphmet+unsubscr...@morphometrics.org.

--
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
---
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to 
morphmet+unsubscr...@morphometrics.org.

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org.

[MORPHMET] MeshLab - setting default FOV as Ortho?

2017-01-19 Thread Christy Hipsley 
Hi all,

Does anyone know if it's possible to set the Field of View (FOV) in MeshLab 
to Ortho as a default setting? It drives me nuts each time I open a file to 
have to change it, and I don't know why anyone would work in MeshLab 
without automatically changing this anyway. I've asked a couple of other 
colleagues but no happy solution so far - I'm hoping someone here might 
have the magic answer!

Thanks,
Christy 

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org.