From nalani.ludington at gmail.com Wed Apr 8 19:44:24 2015 From: nalani.ludington at gmail.com (Nalani Ludington) Date: Wed, 8 Apr 2015 10:44:24 -0700 Subject: [tlocoh-info] Using T-LoCo to look at spatial and temporal avoidance between individuals Message-ID: Hello all, I am using T-LoCo for a study of black bear in Yosemite National Park, California. I will be examining how despotic distribution influences adult male and adult female use of areas of human development. Part of my study involves looking at males and females whose home ranges overlap in a developed area. I will look at presences and absences of each sex in the area of overlap to see if females are avoiding the shared area when a male is present. I was wondering if anyone knows if there has been any work done on a question like this using T-LoCo? The current method that I plan to use was presented in Minta 1992 (see full citation below). This method basically takes presences and absences for each animal and compares them to the expected frequency of spatially independent home range use by each animal relative to the other, and the expected frequency of temporally independent home range use by the two animals. Minta, S.C. 1992. Test of spatial and temporal interaction among animals. Ecological Applications 2: 178-188. Thanks! -Nalani Nalani Ludington Humboldt State University Wildlife Department 1 Harpst St. Arcata, CA 95521 nalani.ludington at gmail.com -------------- next part -------------- An HTML attachment was scrubbed... URL: From galadrielent at yahoo.com Wed Apr 8 22:28:43 2015 From: galadrielent at yahoo.com (Sandra Elizabeth) Date: Wed, 8 Apr 2015 20:28:43 +0000 (UTC) Subject: [tlocoh-info] Using T-LoCo to look at spatial and temporal avoidance between individuals In-Reply-To: References: Message-ID: <1420566289.2224322.1428524923487.JavaMail.yahoo@mail.yahoo.com> Hello Nalani, I'm working on an analysis of spider monkey space-use and social relationships. I've been using permutation tests as proposed by Whitehead et al. (2005) and Whitehead (2008) to test for preferred/avoided associations between individuals. I've done this using the SOCPROG (http://myweb.dal.ca/hwhitehe/social.htm;see citations at the end) implementation of this analysis, considering associations based on the presence of individuals in the same subgroup. I'm also trying to come up with an equivalent analysis based on individual space-use (specifically core areas)? and for this I've been using T-LoCoH. I basically came up (with a lot of help from Andy Lyons) with a random-encounter-expectation for each pair of individuals within their core areas? (of course, this was only possible if the core areas/isopleth of interest intersected). This exercise is pretty rudimentary because it assumes a random-uniform distribution of individuals in space which is of course a simplification, but it was a good start. Even though I got interesting results, the resulting random expectation was several orders of magnitude smaller than the actual encounter rates for all pairs of individuals, so it wasn't very useful for distinguishing preferred/avoided associations. After recovering from the disappointment, I decided to use a dyadic-spatial-association-index (derived from the core area overlap between two individuals with respect to the sum of their core area) with a bootstrap approach to come up with confidence intervals which I'm using as limits to distinguish non-random or "outstanding" spatial associations, if you will. I hope this gives you some ideas. I recommend taking a good look at Whitehead's work. I also recently came across the R package Digiroo2 which seems to do something similar to what I've been trying to devise, but I really haven't looked into it http://cran.r-project.org/web/packages/Digiroo2/Digiroo2.pdf Good luck, Sandra Sandra E. Smith AguilarDoctorado en Ciencias en Conservaci?n y Aprovechamiento de Recursos NaturalesCIIDIR Unidad Oaxaca, Instituto Polit?cnico Nacional, M?xico Whitehead, H., L. Bejder, and A. C. Ottensmeyer. 2005. Testing associationpatterns: issues arising and extensions. Animal Behaviour69: e1-e6. Whitehead, H.2008. Analyzing animal societies: quantitative methods forvertebrate social analysis. University of Chicago Press, Chicago. Whitehead, H. 2009. SOCPROG programs: analyzing animalsocial structures. Behavioral Ecology andSociobiology 63:765-778 From: Nalani Ludington To: tlocoh-info at lists.r-forge.r-project.org Sent: Wednesday, April 8, 2015 12:44 PM Subject: [tlocoh-info] Using T-LoCo to look at spatial and temporal avoidance between individuals Hello all, I am using T-LoCo for a study of black bear in Yosemite National Park, California. I will be examining how despotic distribution influences adult male and adult female use of areas of human development. Part of my study involves looking at males and females whose home ranges overlap in a developed area. I will look at presences and absences of each sex in the area of overlap to see if females are avoiding the shared area when a male is present. I was wondering if anyone knows if there has been any work done on a question like this using T-LoCo? The current method that I plan to use was presented in Minta 1992 (see full citation below). This method basically takes presences and absences for each animal and compares them to the expected frequency of spatially independent home range use by each animal relative to the other, and the expected frequency of temporally independent home range use by the two animals.? Minta, S.C. 1992. Test of spatial and temporal interaction among animals. Ecological Applications 2: 178-188.? Thanks!-Nalani ?Nalani LudingtonHumboldt State University?Wildlife Department?1 Harpst St. Arcata, CA 95521nalani.ludington at gmail.com _______________________________________________ Tlocoh-info mailing list Tlocoh-info at lists.r-forge.r-project.org http://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/tlocoh-info -------------- next part -------------- An HTML attachment was scrubbed... URL: From wgetz at berkeley.edu Thu Apr 9 17:40:22 2015 From: wgetz at berkeley.edu (Wayne Getz) Date: Thu, 9 Apr 2015 08:40:22 -0700 Subject: [tlocoh-info] Using T-LoCo to look at spatial and temporal avoidance between individuals In-Reply-To: References: Message-ID: <060AAF15-9FFD-443D-B5C0-301D55CF3600@berkeley.edu> Hi Nalani: Sounds like an interesting study. I look forward to seeing your results. Best Wayne > On Apr 8, 2015, at 10:44 AM, Nalani Ludington wrote: > > Hello all, > > I am using T-LoCo for a study of black bear in Yosemite National Park, California. I will be examining how despotic distribution influences adult male and adult female use of areas of human development. Part of my study involves looking at males and females whose home ranges overlap in a developed area. I will look at presences and absences of each sex in the area of overlap to see if females are avoiding the shared area when a male is present. I was wondering if anyone knows if there has been any work done on a question like this using T-LoCo? The current method that I plan to use was presented in Minta 1992 (see full citation below). This method basically takes presences and absences for each animal and compares them to the expected frequency of spatially independent home range use by each animal relative to the other, and the expected frequency of temporally independent home range use by the two animals. > > Minta, S.C. 1992. Test of spatial and temporal interaction among animals. Ecological Applications 2: 178-188. > > Thanks! > -Nalani > > > > Nalani Ludington > Humboldt State University > Wildlife Department > 1 Harpst St. Arcata, CA 95521 > nalani.ludington at gmail.com > > _______________________________________________ > Tlocoh-info mailing list > Tlocoh-info at lists.r-forge.r-project.org > http://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/tlocoh-info ___________________________________________________________ ___________________________________________________________ Professor Wayne M. Getz A. Starker Leopold Professor of Wildlife Ecology Department Environmental Science Policy & Management 130 Mulford Hall University of California at Berkeley CA 94720-3112, USA Campus Visitors: My office is in 5052 VLSB Fax: ( (1-510) 666-2352 Office: (1-510) 642-8745 Lab: (1-510) 643-1227 email: wgetz at berkeley.edu lab: http://www.CNR.Berkeley.EDU/~getz/ T-LoCoH: http://tlocoh.r-forge.r-project.org/ NOVA: http://www.novamodeler.com/ ___________________________________________________________ ___________________________________________________________ -------------- next part -------------- An HTML attachment was scrubbed... URL: From lyons.andy at gmail.com Fri Apr 10 09:46:47 2015 From: lyons.andy at gmail.com (Andy Lyons) Date: Fri, 10 Apr 2015 00:46:47 -0700 Subject: [tlocoh-info] Using T-LoCo to look at spatial and temporal avoidance between individuals In-Reply-To: <060AAF15-9FFD-443D-B5C0-301D55CF3600@berkeley.edu> References: <060AAF15-9FFD-443D-B5C0-301D55CF3600@berkeley.edu> Message-ID: <55277FE7.6010602@gmail.com> Hi Nalani, Yes you have an interesting study. The interactions between individuals are at the center of a lot of important questions, and I think there's a growing interest in using tracking data to look at interaction. Home range overlap, which Minta's (1992) method builds off of, seems like a good place to start. You can certainly compute home range overlap in T-LoCoH (for details see Measuring area of intersection for isopleths ). T-LoCoH has a bit more flexibility than other home methods because it allows you to define a home range along a number of gradients (such as revisitation rate or directionality), which could be useful in intersection studies depending on the question. I believe the analysis of interactions from movement data is an area where more research is needed. Techniques that are based on the intersection of home ranges and UDs wash away the temporal dynamics that questions like yours are interested in. I present in chapter 6 of my dissertation some preliminary ideas for using hulls themselves (not isopleths) to characterize the spatiotemporal dynamics of two individuals, which might be of interest. Best, Andy On 4/9/2015 8:40 AM, Wayne Getz wrote: > Hi Nalani: > > Sounds like an interesting study. I look forward to seeing your results. > > Best > > Wayne > >> On Apr 8, 2015, at 10:44 AM, Nalani Ludington >> > wrote: >> >> Hello all, >> >> I am using T-LoCo for a study of black bear in Yosemite National >> Park, California. I will be examining how despotic distribution >> influences adult male and adult female use of areas of human >> development. Part of my study involves looking at males and females >> whose home ranges overlap in a developed area. I will look at >> presences and absences of each sex in the area of overlap to see if >> females are avoiding the shared area when a male is present. I was >> wondering if anyone knows if there has been any work done on a >> question like this using T-LoCo? The current method that I plan to >> use was presented in Minta 1992 (see full citation below). This >> method basically takes presences and absences for each animal and >> compares them to the expected frequency of spatially independent home >> range use by each animal relative to the other, and the expected >> frequency of temporally independent home range use by the two animals. >> >> Minta, S.C. 1992. Test of spatial and temporal interaction among >> animals. Ecological Applications 2: 178-188. >> >> Thanks! >> -Nalani >> >> >> >> Nalani Ludington >> Humboldt State University >> Wildlife Department >> 1 Harpst St. Arcata, CA 95521 >> nalani.ludington at gmail.com >> >> _______________________________________________ >> Tlocoh-info mailing list >> Tlocoh-info at lists.r-forge.r-project.org >> >> http://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/tlocoh-info > > ___________________________________________________________ > ___________________________________________________________ > > Professor Wayne M. Getz > A. Starker Leopold Professor of Wildlife Ecology > Department Environmental Science Policy & Management > 130 Mulford Hall > University of California at Berkeley > CA 94720-3112, USA > > Campus Visitors: My office is in 5052 VLSB > > Fax: ( (1-510) 666-2352 > Office: (1-510) 642-8745 > Lab: (1-510) 643-1227 > email: wgetz at berkeley.edu > lab: http://www.CNR.Berkeley.EDU/~getz/ > > T-LoCoH: http://tlocoh.r-forge.r-project.org/ > NOVA: http://www.novamodeler.com/ > ___________________________________________________________ > ___________________________________________________________ > > > > > > > > > _______________________________________________ > Tlocoh-info mailing list > Tlocoh-info at lists.r-forge.r-project.org > http://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/tlocoh-info -------------- next part -------------- An HTML attachment was scrubbed... URL: From markpeaden at yahoo.com Fri Apr 24 08:50:45 2015 From: markpeaden at yahoo.com (Mark Peaden) Date: Thu, 23 Apr 2015 23:50:45 -0700 Subject: [tlocoh-info] home range outputs Message-ID: <007f01d07e5a$fe98d650$fbca82f0$@yahoo.com> Hi all, A quick and what I am assuming is a simple question that I am simply overlooking the answer for. I am working with some data to explore how the rest of our analysis will be going, and I was wanting to get an output for home range size. I looked over some of the previous emails thru the list serve and found one from late February. > A: Calculating the home ranges (50% core and 95% HR) for K > iso.level area edge.len nep ptp hm.val num.hulls > 1 0.10 70269838 108903.2 306 0.1039755 9151933 76 > 2 0.25 202560380 241182.6 751 0.2551818 13458959 161 > 3 0.50 411476203 396289.0 1478 0.5022086 17707306 296 > 4 0.75 795190800 498162.6 2223 0.7553517 25729873 578 > 5 0.95 1930117958 593033.8 2800 0.9514101 64256706 1873 > Table 1: Number of fixes and estimated home ranges from the lhs I understand that the "area" column is a representation of the home range size, but when I look at all my exported csv files, my area changes. I have tried multiple values of K (per the walk thru). I guess that I am missing something simple, or not understanding something about how to get the 95% home range? Mark Peaden -------------- next part -------------- An HTML attachment was scrubbed... URL: