[MORPHMET] combining 3D datasets
Hi all, I have 3D landmark data from two different views (lateral and ventral) of some rodent skulls. I would like to append these data, based on the 4 landmarks they have in common. Could someone give me leads on the best software for doing this kind of manipulation? Thank you- -Bryan -- 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.
[MORPHMET] Testing Group Mean Differences, Nonparametric Framework
Hi everyone, I am trying to run a non-parametric test for group mean differences using PC scores and I can’t seem to find a function to do that. I am using PC scores instead of Procrustes Coordinates so as to have fewer variables than specimens. Does anyone know of a function that can do this? I came across the function adonis in Vegan, but that seems to use distances so I don’t think it’s applicable to this situation. Thanks for any help! Best, Eugenia -- 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.
[MORPHMET] 3D landmark registration
Hi all, I have 3D landmark data collected from 2 different views (lateral, ventral) of some rodent skulls. I would like to tie these together, based on the 4 landmarks the two datasets have in common. What is the best program for this type of data manipulation? Thanks- -Bryan -- 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.
Re: [MORPHMET] combining 3D datasets
Sorry, folks. I meant to send the previous message from this and not the moderator account. Too much power for one person to wield. -ds On 2/6/15 7:00 PM, Bryan McLean wrote: Hi all, I have 3D landmark data from two different views (lateral and ventral) of some rodent skulls. I would like to append these data, based on the 4 landmarks they have in common. Could someone give me leads on the best software for doing this kind of manipulation? Thank you- -Bryan -- MORPHMET may be accessed via its webpage at http://www.morphometrics.org -- 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.
Re: [MORPHMET] Testing Group Mean Differences, Nonparametric Framework
On 6.2.2015 22:54, Eugenia Leone Gold wrote: Hi everyone, I am trying to run a non-parametric test for group mean differences using PC scores and I can’t seem to find a function to do that. I am using PC scores instead of Procrustes Coordinates so as to have fewer variables than specimens. Does anyone know of a function that can do this? I came across the function adonis in Vegan, but that seems to use distances so I don’t think it’s applicable to this situation. Thanks for any help! Best, Eugenia Hi Eugenia, If you want (just) to make a statistical inference regarding difference between two shape means, you can use permutation test. You can do it in MorphoJ, geomorph, PAST...All of them are distance based. If you want to perform hypothesis testing that describe patterns of shape variation and covariation in regard to some factor(s), solution is to perform appropriate linear model. However, regardless whether dependent variables are original procrustes residuals or PC scores of them, small sample size may be a problem in traditional (parametric) approaches. There is recent paper by Collyer and Adams published in Heredity (http://www.nature.com/hdy/journal/vaop/ncurrent/abs/hdy201475a.html) which demonstrated efficacy of non-parametric approach that is not constrained by low sample size compared to number of variables. That approach can evaluate effect size of factors in the model even if sample size is small relative to number of variables. Procedure is described and justified in the paper and you can perform it in the geomorph package (procD.lm function). Regarding non-parametric tests, as far as I know, most of them use distance based methods. E.g. see here: http://www.entsoc.org/PDF/MUVE/6_NewMethod_MANOVA1_2.pdf Hope this help. All the best. -- Marko Djurakic, Teaching assistant, Faculty of Sciences Department of Biology and Ecology University of Novi Sad Trg Dositeja Obradovića 2 21 000 Novi Sad Serbia PhD student at Faculty of Biology, University of Belgrade Studentski trg 16 11000 Belgrade Serbia e-mail: marko.djura...@dbe.uns.ac.rs -- 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.
[MORPHMET] MANOVA and shape data
Dear morphometrics, I have two questions about applying MANOVA on shape data: 1. MANOVA assumes the data to be normal distributed. What is the best way to test normal distribution of multivariate shape data? And what is the best (free) software for this issue (is this embedded in PAST)? 2. The differences between my groups are very distinct in the CVA. I want to test whether these differences are statistically significant, too. As my sample size only slightly exceeds the degrees of freedom, I want to apply the MANOVA onto the CVs (i.e. decrease in the number of dependent variables). Is this possible or is it redundant? Best regards Patrick Arnold -- Patrick Arnold, M.Sc. Institut für Spezielle Zoologie und Evolutionsbiologie mit Phyletischem Museum Friedrich-Schiller-Universität Jena Germany This message was sent through https://webmail.uni-jena.de -- 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.
