Re: [MORPHMET] relative positions of landmark partitions in integration tests - how important?

2018-01-24 Thread David Katz
Now if only archaeological and museum skeletal samples would stop disarticulating and stay in anatomical position. On Wed, Jan 24, 2018 at 11:29 AM, David Katz <dck...@ucdavis.edu> wrote: > No argument here. > > On Wed, Jan 24, 2018 at 11:12 AM, Adams, Dean [EEOBS] <dcad...@ias

Re: [MORPHMET] relative positions of landmark partitions in integration tests - how important?

2018-01-24 Thread David Katz
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> > > > > *From:* katz.w...@gmail.com [mailto:katz.w.

Re: [MORPHMET] relative positions of landmark partitions in integration tests - how important?

2018-01-24 Thread David Katz
I read Christy's question a little differently, and requiring some clarification. First, Dean, doesn't Dean & Felice fix the angle between jaw and cranium so that you can subject a craniomandibular dataset to a common GPA, which at the PLS step has the benefit of preserving relative size

Re: [MORPHMET] pairwise matrix of vector angles in R

2017-11-05 Thread David Katz
trix(M) > type <- match.arg(type) > if(type == "r") { > vc <- vec.cor.matrix(M) # as above > } else { > vc <- vec.cor.matrix(M) > vc <- acos(vc) # finds angles for vector correlations > diag(vc) = 0 # Make sure computational 0s are true 0s > }

Re: [MORPHMET] pairwise matrix of vector angles in R

2017-11-03 Thread David Katz
I think this does it (but please check; I quickly stuck together two different pieces of code)... # matrix where each vector is a row vec.mat <- ... #Compute group*loci matrix of mean microsatellite lengths angle.mat <- matrix(NA,nrow=nrow(vec.mat),ncol=nrow(vec.mat)) # angle function (radians

Re: [MORPHMET] eliminating the effect of population differences

2017-08-10 Thread David Katz
and form. http://www.pnas.org/content/early/2017/07/18/1702586114.full I hope you find it interesting. David On Fri, Jan 20, 2017 at 8:50 AM, David Katz <dck...@ucdavis.edu> wrote: > Elahe and Ari, > > If your dependent observations have more than a few dimensions, such

Re: [MORPHMET] eliminating the effect of population differences

2017-01-20 Thread David Katz
Elahe and Ari, If your dependent observations have more than a few dimensions, such as is typical with landmark data or even a collections of linear measurements, then I think the common covariance matrix recommendation from Dr. Rohlf is the more standard approach. A typical strategy for removing

Re: [MORPHMET] Small object (insectivorous bat) photogrammetry

2016-12-14 Thread David Katz
Hi Giada, The object may simply be too small. However... 1. My recollection is that you need to keep your f-stop much lower, maybe f-11 maximum. Look into it. It's possible this has changed with recent software updates. 2. I assume each chunk is a rotation around the skull. Try shooting more

Re: [MORPHMET] Read .landmarkAscii file into R

2016-02-16 Thread David Katz
ims[i]=dim(read.amira.set(paste(path.dir,"/",names[i],sep=""),"auto"))[1]} > > array.amira=array(NA,dim=c(as.numeric(names(sort(-table(dims)))[1]),3,length(names)))} > else{array.amira=array(NA,dim=c(nland,3,length(names)))} > for(i in 1:length(names)){ > array.amira[,,i]=read.amira.set(paste(path

[MORPHMET] Read .landmarkAscii file into R

2016-01-19 Thread David Katz
,0,1 (or maybe 1,0,0). This is really strange behavior. A read function shouldn't write. My issue may be better suited to an R forum, but I am hoping someone here has reliable code for reading Avizo landmarks into R. Thanks in advance. David -- David Katz University of California, Davi

Re: [MORPHMET] Read .landmarkAscii file into R

2016-01-19 Thread David Katz
.-. .-. /_") > \\_//^\\_//^\\_// > `"` `"` `"`* > > learn more about them here: www.emmasherratt.com/caecilians > > > On 20 January 2016 at 14:50:38, David Katz (dck...@ucdavis.edu) wrote: > > Hi everyone, > > I've collected

Re: [MORPHMET] Error with read.ply in geomorph

2014-12-16 Thread David Katz
(which is basically the same) to import all kinds of meshes (stl, obj, ply) binary and ascii into an object of class mesh3d Best Stefan On 15/12/14 01:52, David Katz wrote: Hello, When I try to read a 3D surface file (ply ascii format) into geomorph, I get the following error: Error

[MORPHMET] Error with read.ply in geomorph

2014-12-14 Thread David Katz
have an idea where this problem is coming from and how to fix it? Note that the model opens without difficulty as a binary ply in Geomagic. Thanks. David Katz -- David Katz Doctoral Candidate Department of Anthropology--Evolutionary Wing University of California, Davis Young Hall 204

Re: [MORPHMET] Recommendations for sticky substances

2014-09-16 Thread David Katz
...@morphometrics.org. -- David Katz Doctoral Candidate Department of Anthropology--Evolutionary Wing University of California, Davis Young Hall 204 -- MORPHMET may be accessed via its webpage at http://www.morphometrics.org To unsubscribe from this group and stop receiving emails from it, send