Dear Clement, Thank you for your help. So, QGIS does not use R interface for home range analyses that is, QGIS is a stand alone tool for this anlayses? Franco
---------- Original Message ----------- From: [email protected] To: [email protected] Sent: Fri, 12 Feb 2010 12:00:01 +0100 Subject: AniMov Digest, Vol 53, Issue 3 > Send AniMov mailing list submissions to > [email protected] > > To subscribe or unsubscribe via the World Wide Web, visit > http://lists.faunalia.it/cgi-bin/mailman/listinfo/animov > or, via email, send a message with subject or body 'help' to > [email protected] > > You can reach the person managing the list at > [email protected] > > When replying, please edit your Subject line so it is more specific > than "Re: Contents of AniMov digest..." > > Today's Topics: > > 1. LoCoH isopleths intervals... to e.g. 5%? (Henrik Lundqvist) > 2. Re: Error with kernel LSCV / kernel adj h / NNCH (Anne Ghisla) > 3. basic use of the R project for home range analyses > (Franco Leandro de Souza) > 4. Re: basic use of the R project for home range analyses > (Cl?ment Calenge) > 5. Re: LoCoH isopleths intervals... to e.g. 5%? (Cl?ment Calenge) > 6. Re: LoCoH isopleths intervals... to e.g. 5%? (Henrik Lundqvist) > > ---------------------------------------------------------------------- > > Message: 1 > Date: Thu, 11 Feb 2010 18:32:50 +0100 > From: Henrik Lundqvist <[email protected]> > Subject: [AniMov] LoCoH isopleths intervals... to e.g. 5%? > To: [email protected] > Message-ID: > <[email protected]> Content- > Type: text/plain; charset="utf-8" > > Hi all > > I got a question regarding the k-NNCH or LoCoH funktion in > Adehabitat for calculating homeranges. The default setting regaring > the isopleths are 10% steps as follows: c(100,90,80,70,60,50,40,30, > 20,10) Is there a parameter I can change to achieve 5% steps (or > other configuration)? I can't find it in the arguments of the > function. There seems to be a possibility to set more intervals in > the ArcGIS-plugin at: http://nature.berkeley.edu/~alyons/locoh/arcgis9/index.html > > I guess I have to engage with the code of NNCH.R, but when I try > (the R-guru that I'm not) I get errors. > > Couldn't it be coded as an argument of the function? Would be neat... > > Cheers > /Henrik Lundqvist > ___________________________ > Henrik Lundqvist > [email protected] > [email protected] > -------------- next part -------------- > An HTML attachment was scrubbed... > URL: <http://lists.faunalia.it/pipermail/animov/attachments/20100211/19e3928c/atta chment.html> > > ------------------------------ > > Message: 2 > Date: Thu, 11 Feb 2010 20:34:57 +0200 > From: Anne Ghisla <[email protected]> > Subject: Re: [AniMov] Error with kernel LSCV / kernel adj h / NNCH > To: Animal Movement <[email protected]> > Cc: "[email protected] List" <[email protected]> > Message-ID: > <[email protected]> > Content-Type: text/plain; charset=UTF-8 > > Hi Henrik, Jehol, lists, > > I forward the message to the qgis-user list, if any other Mint user > has hints to squash this nasty bug... > > I actually have to setup the testing suite :) hope to find time soon. > > cheers > Anne > > On Mon, Feb 8, 2010 at 12:53 PM, Lunken <[email protected]> wrote: > > > > Hi all > > > > I have the same problem. > > > > My config > > > > LinuxMint 7 (Ubuntu 9.04) > > QGIS 1.4.0-Enceladus > > HomeRange plugin 2.1.4 > > R -base-core 2.10.1-2jaunty0 > > Python 2.6.2 > > > > Any leads? > > > > cheers > > Henrik Lundqvist, PhD > > Swedish University of Agricultural Sciences > > -- > > View this message in context: http://old.nabble.com/Error-with-kernel- LSCV---kernel-adj-h---NNCH-tp27357248p27498089.html > > Sent from the AniMov mailing list archive at Nabble.com. > > > > _______________________________________________ > > AniMov mailing list > > [email protected] > > http://lists.faunalia.it/cgi-bin/mailman/listinfo/animov > > > > ------------------------------ > > Message: 3 > Date: Thu, 11 Feb 2010 15:11:08 -0400 > From: "Franco Leandro de Souza" <[email protected]> > Subject: [AniMov] basic use of the R project for home range analyses > To: [email protected] > Message-ID: <[email protected]> > Content-Type: text/plain; charset=iso-8859-1 > > Dear members, > I am initialing in R project so, excuse me for some inconvenience > and repetition in the questions I will post in this message. I am > trying to use this platform to analyze data on animal home range, > particularly home range size (e.g. traditional area calculus by > minimum convex polygon and kernel). After several tentative by > different packages > (including ArcView, Home Range, Home Ranger, CalHome?), the tools > from R project seems to be interesting for my purposes. However, the > things are not so friendly as they are shown. For instance, after > install the ?adehabitat? package, I am informed that other packages > are necessary for a complete analyze. No problem yet. Things become > to be dark when several links are suggested to produce figures: > quantum gis and associated files (phyton for instance but the are > many other). So, it is like a puzzle and the puzzle pieces are > hosted in the hard disk. So, basically I would like to use > coordinate data from GPS to produce home range estimates, including > figures, and my question is: is there a step by step manual for R > project to proceed with such analyses? Thanks for all, Franco > > -- > Esta mensagem foi verificada pelo sistema de antiv?rus e > acredita-se estar livre de perigo. > > ------------------------------ > > Message: 4 > Date: Fri, 12 Feb 2010 09:32:18 +0100 > From: Cl?ment Calenge <[email protected]> > Subject: Re: [AniMov] basic use of the R project for home range > analyses > To: Animal Movement <[email protected]> > Message-ID: <[email protected]> > Content-Type: text/plain; charset=ISO-8859-1; format=flowed > > Dear Franco, > > > So, basically I would like to use coordinate data from GPS to produce home > > range estimates, including figures, and my question is: is there a step by > > step manual for R project to proceed with such analyses? > > > > A good place to start is the Animove "how to": > https://wiki.faunalia.it/dokuwiki/doku.php?id=public:animove_howto > It describes how to install the QGIS plugin for home range > estimation. If you want to use adehabitat as such (i.e. without any > QGIS interface), you first have to learn how to use R. There are > several good manuals available at this URL: http://cran.univ- > lyon1.fr/other-docs.html The Animove "how to" also describes how to > use adehabitat without interface, showing the R code needed for > various home range estimation methods. Another good place to start > is to type: > > library(adehabitat) > demo(homerange) > > within R. You can then browse the R code of the demo and look at the > help pages of the functions used in the demo. > Hope this helps, > > Cl?ment Calenge > > -- > Cl?ment CALENGE > Cellule d'appui ? l'analyse de donn?es > Office national de la chasse et de la faune sauvage > Saint Benoist - 78610 Auffargis > tel. (33) 01.30.46.54.14 > > ------------------------------ > > Message: 5 > Date: Fri, 12 Feb 2010 09:46:20 +0100 > From: Cl?ment Calenge <[email protected]> > Subject: Re: [AniMov] LoCoH isopleths intervals... to e.g. 5%? > To: Animal Movement <[email protected]> > Message-ID: <[email protected]> > Content-Type: text/plain; charset=UTF-8; format=flowed > > Hello Henrik, > > Henrik Lundqvist wrote: > > I got a question regarding the k-NNCH or LoCoH funktion in Adehabitat > > for calculating homeranges. > > The default setting regaring the isopleths are 10% steps as follows: > > c(100,90,80,70,60,50,40,30,20,10) > > Is there a parameter I can change to achieve 5% steps (or other > > configuration)? I can't find it in the arguments of the function. > > There seems to be a possibility to set more intervals in the > > ArcGIS-plugin at: > > http://nature.berkeley.edu/~alyons/locoh/arcgis9/index.html > > <http://nature.berkeley.edu/%7Ealyons/locoh/arcgis9/index.html> > > I guess I have to engage with the code of NNCH.R, but when I try (the > > R-guru that I'm not) I get errors. > > Couldn't it be coded as an argument of the function? Would be neat... > > Actually, the function NNCH returns an object of class "NNCH" > containing all possible isopleths that can be built with a given > dataset. Then, other functions are used to "extract" given > isopleths. For example, if you want to compute the home range size > for isopleth 95%, you have to set the argument percent = 95 in the > function NNCH.area. Or, if you want the home range sizes for > isopleths 100 to 50% by 5% steps, you have to set: percent = > rev(seq(50,95, by=5)) in the function NNCH.area. Similarly, if you > want to plot the 95% home range, you have to set percent=95 in the > function plot.NNCH. etc. Have a look at the argument percent on the > help pages of plot.NNCH, and NNCH.area. Hope this helps, > > Cl?ment Calenge > > -- > Cl?ment CALENGE > Cellule d'appui ? l'analyse de donn?es > Office national de la chasse et de la faune sauvage > Saint Benoist - 78610 Auffargis > tel. (33) 01.30.46.54.14 > > ------------------------------ > > Message: 6 > Date: Fri, 12 Feb 2010 10:05:23 +0100 > From: Henrik Lundqvist <[email protected]> > Subject: Re: [AniMov] LoCoH isopleths intervals... to e.g. 5%? > To: Animal Movement <[email protected]> > Message-ID: > <[email protected]> > Content-Type: text/plain; charset="utf-8" > > Thanks Cl?ment, well appreciated > > /Henrik > > ___________________________ > Henrik Lundqvist > [email protected] > [email protected] > > 2010/2/12 Cl?ment Calenge <[email protected]> > > > Hello Henrik, > > > > Henrik Lundqvist wrote: > > > >> I got a question regarding the k-NNCH or LoCoH funktion in Adehabitat for > >> calculating homeranges. > >> The default setting regaring the isopleths are 10% steps as follows: > >> c(100,90,80,70,60,50,40,30,20,10) > >> Is there a parameter I can change to achieve 5% steps (or other > >> configuration)? I can't find it in the arguments of the function. There > >> seems to be a possibility to set more intervals in the ArcGIS-plugin at: > >> http://nature.berkeley.edu/~alyons/locoh/arcgis9/index.html < > >> http://nature.berkeley.edu/%7Ealyons/locoh/arcgis9/index.html> > >> > >> I guess I have to engage with the code of NNCH.R, but when I try (the > >> R-guru that I'm not) I get errors. > >> Couldn't it be coded as an argument of the function? Would be neat... > >> > > > > Actually, the function NNCH returns an object of class "NNCH" containing > > all possible isopleths that can be built with a given dataset. Then, other > > functions are used to "extract" given isopleths. For example, if you want to > > compute the home range size for isopleth 95%, you have to set the argument > > percent = 95 in the function NNCH.area. Or, if you want the home range sizes > > for isopleths 100 to 50% by 5% steps, you have to set: percent = > > rev(seq(50,95, by=5)) in the function NNCH.area. Similarly, if you want to > > plot the 95% home range, you have to set percent=95 in the function > > plot.NNCH. etc. > > Have a look at the argument percent on the help pages of plot.NNCH, and > > NNCH.area. > > Hope this helps, > > > > Cl?ment Calenge > > > > -- > > Cl?ment CALENGE > > Cellule d'appui ? l'analyse de donn?es > > Office national de la chasse et de la faune sauvage > > Saint Benoist - 78610 Auffargis > > tel. (33) 01.30.46.54.14 > > > > _______________________________________________ > > AniMov mailing list > > [email protected] > > http://lists.faunalia.it/cgi-bin/mailman/listinfo/animov > > > -------------- next part -------------- > An HTML attachment was scrubbed... > URL: > <http://lists.faunalia.it/pipermail/animov/attachments/20100212/4a922af1/atta chment-0001.htm> > > ------------------------------ > > _______________________________________________ > AniMov mailing list > [email protected] > http://lists.faunalia.it/cgi-bin/mailman/listinfo/animov > > End of AniMov Digest, Vol 53, Issue 3 > ************************************* > > -- > Esta mensagem foi verificada pelo sistema de antivírus e > acredita-se estar livre de perigo. ------- End of Original Message ------- -- Esta mensagem foi verificada pelo sistema de antivírus e acredita-se estar livre de perigo. _______________________________________________ AniMov mailing list [email protected] http://lists.faunalia.it/cgi-bin/mailman/listinfo/animov
