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<p>Hi Maja, <br>
</p>
<p>I don't see anything obviously wrong with your code. The fact
that you're getting an error message suggests you might have
encountered a bug or there is something about your data the
function isn't dealing with properly. I can help you sort through
the errors if I can reproduce them. Can you send me a separate
email and we'll figure out a way to figure this out? For example
we can do a video call or you could send me a chunk of your code
and data that reproduces the error. Then we can report back to the
list how the issue was solved.<br>
</p>
<p>Cheers,<br>
Andy<br>
</p>
<br>
<div class="moz-cite-prefix">On 10/25/2016 5:50 AM,
<a class="moz-txt-link-abbreviated" href="mailto:maja.bradaric92@gmail.com">maja.bradaric92@gmail.com</a> wrote:<br>
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<p class="MsoNormal">Hi Andy (and everyone),</p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Thank you very much for your reply. During
past few days I’ve managed to find all of these functions
myself and to check how they work on my data. </p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">However, I encountered some problems. When
I used ancillary variable as hull metric in order to make a
two dimensional scatter plot and run this function:</p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">hsp2 <- lhs.plot.scatter(Lizard.lhs.k21,
x="anv", y="area", anv="Air_temp",col="spiral",bg="black"), </p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"> I was sent to the debugging environment in
R. The message on the top says: “Debug location is approximate
because the source is not available”, and when I do the
execution, I get my scatter plot. But, when I run the next
function:</p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">plot(Lizard.lhs.k21, hpp=T,hsp=hsp2,
hpp.classify="hsp"),</p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"> so I can plot my data points and use a
scatter plot as a legend, I get the following error message:
”Can’t find values for saved hull scatter plot”. I am guessing
I should do something differently in the debug part of the
problem?</p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Also, I think it would be nicer to use mean
values of ancillary variables for all data points included in
one hull, not only the value of parent point, and I would be
really grateful if you or anyone else can help me with that. </p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Cheers,</p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Maja</p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal" style="border:none;padding:0cm"><b>From:
</b><a moz-do-not-send="true"
href="mailto:lyons.andy@gmail.com">Andy Lyons</a><br>
<b>Sent: </b>24 October 2016 19:22<br>
<b>To: </b><a moz-do-not-send="true"
href="mailto:maja.bradaric92@gmail.com">maja.bradaric92@gmail.com</a>;
<a moz-do-not-send="true"
href="mailto:tlocoh-info@lists.r-forge.r-project.org">tlocoh-info@lists.r-forge.r-project.org</a><br>
<b>Subject: </b>Re: [tlocoh-info] Ancillary variables</p>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
<p style="margin-bottom:12.0pt">Hi Maja. Good questions. You are
correct that there are not many guidelines for using ancillary
variables in the documentation, but your instincts on how they
could be useful in an analysis seem spot on. As a reminder to
others, 'ancillary variable' is the T-LoCoH term for
additional columns or attributes associated with each
location. They can be either measured values from a GPS sensor
(e.g., temperature), or derived during post-processing from
other data (e.g., NDVI values). See <tt><span
style="font-size:10.0pt">lxy.anv.add()</span></tt> and <tt><span
style="font-size:10.0pt">lxy.gridanv.add()</span></tt>.
Internally, ancillary variables are saved in columns in the
data frame attached to the SpatialPointsDataFrame which
contains the locations. All the original points are saved in
both locoh-xy and locoh-hullset objects.<br>
<br>
One way you can use ancillary variables is for subsetting
data, as you suggested. This could be useful for example if
you wanted to look at space use patterns for different sets of
locations based on an attribute field. To create subsets of
hulls, see <tt><span style="font-size:10.0pt">lhs.filter.anv()</span></tt>,
to create subsets of points from a locoh-xy object see <tt><span
style="font-size:10.0pt">lxy.subset()</span></tt> (I can
send a code sample if it isn't clear how to use). Subsetting
location data could also of course be done prior to turning
the locations into a locoh-xy object. <br>
<br>
Ancillary variables can also be used to sort hulls when
constructing isopleths. This is one option for differentiating
internal space within the 'home range' along a gradient other
than density. If your GPS sensor recorded temperature, for
example, you could create a utilization distribution that
highlights how the individual used the space based on a
temperature gradient. IMHO, the ability to create UDs that
differentiate space use along behavioral or environmental
gradients is one of T-LoCoH's most interesting and
underutilized features which has a lot of promise for
connecting the concept of a home range to a much broader range
of behavioral and ecological questions (e.g., <a
moz-do-not-send="true"
href="http://jmammal.oxfordjournals.org/content/93/4/890">Fieberg
and Börger 2012</a>). <br>
<br>
To sort hulls based on an ancillary variable, you would pass <tt><span
style="font-size:10.0pt">sort.metric="anv"</span></tt> to
the function <tt><span style="font-size:10.0pt">lhs.iso.add()</span></tt>,
with an additional argument called <tt><span
style="font-size:10.0pt">anv</span></tt> that passes the
name of the ancillary variable column name of interest (e.g.,
<tt><span style="font-size:10.0pt">anv="temp"</span></tt>).
The 'anv' hull metric is defined to be the ancillary variable
value of the hull parent point. You may ask why the hull
parent point, and not the mean value of all points used to
construct the hull, or all points enclosed by the hull? That
was just the easiest to implement, but if you were going to
sort hulls for isopleths it might be better to define a hull
metric for the mean ancillary value for all enclosed points
(depends on the pattern you're seeking). Defining new hull
metrics is not terribly hard but takes some coding knowledge,
contact me for details.<br>
<br>
You can also use ancillary variables of the hull parent point
as you would any other hull metric - for plotting symbology,
in scatter plots, etc. If you see an interesting pattern in a
two-dimensional scatterplot of an ancillary variable and
another hull metric, you can use that as a legend in a map
(e.g., <a moz-do-not-send="true"
href="https://static-content.springer.com/image/art%3A10.1186%2F2051-3933-1-2/MediaObjects/40462_2012_Article_2_Fig10_HTML.jpg">Fig
10</a> in <a moz-do-not-send="true"
href="http://dx.doi.org/10.1186/2051-3933-1-2">Lyons et al
2013</a>). <br>
<br>
Hope this helps you think about possible ways for using
ancillary variables in an analysis. A lot of this is new
territory, but T-LoCoH is all about giving you a flexible set
of tools to explore and visualize your data. Let me know if
you have any questions or need help with any of the functions.<br>
<br>
Cheers,<br>
Andy <br>
<br>
<br>
</p>
<p class="MsoNormal"><span style="color:black"><o:p> </o:p></span></p>
<div>
<p class="MsoNormal"><span style="color:black">On 10/19/2016
6:54 AM, <a moz-do-not-send="true"
href="mailto:maja.bradaric92@gmail.com">maja.bradaric92@gmail.com</a>
wrote:<o:p></o:p></span></p>
</div>
<blockquote style="margin-top:5.0pt;margin-bottom:5.0pt">
<p class="MsoNormal"><span style="color:black">Hello everyone,<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">I’ve started to
use T-LoCoH just recently and I am still investigating can
this package help me answer all the questions I have in my
research. I guess this is very basic question, but, there
is no so much explained about ancillary variables and what
can be done if we have them in our data. <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">If I include
ancillary variables in my lxy object (temperature, for
example), does that mean space use maps will later be
created according to the ancillary variable? Or I can use
them just to make subsets of the hulls according to
certain temperature values? Can I produce behavioural maps
according to temperature and possible temperature changes?
I don`t really understand how this works, so I would be
very grateful for any clarification, in order to be able
to continue with my data analysis.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Also, is it
possible to include only one ancillary variable, or it can
be more of them?<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Thanks in
advance.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Cheers,<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black">Maja<o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"> <o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"><br>
<br>
<br>
<o:p></o:p></span></p>
<pre>_______________________________________________</pre>
<pre>Tlocoh-info mailing list</pre>
<pre><a moz-do-not-send="true" href="mailto:Tlocoh-info@lists.r-forge.r-project.org">Tlocoh-info@lists.r-forge.r-project.org</a></pre>
<pre><a moz-do-not-send="true" href="http://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/tlocoh-info">http://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/tlocoh-info</a></pre>
</blockquote>
<p class="MsoNormal"><span style="color:black"><o:p> </o:p></span></p>
<p class="MsoNormal" style="margin-bottom:12.0pt"><span
style="color:black">-- <br>
</span><strong><span style="color:black">T-LoCoH</span></strong><span
style="font-family:"Times New
Roman",serif;color:black">: A hull-based method for
home range construction and spatiotemporal analysis of
movement data.<br>
Lyons, A., Turner, W.C., and WM Getz. 2013. Home Range Plus:
A Space-Time Characterization of Movement Over Real
Landscapes. <a moz-do-not-send="true"
href="http://www.movementecologyjournal.com/content/1/1/2">BMC
Movement Ecology 1:2</a>.<br>
<a moz-do-not-send="true"
href="http://tlocoh.r-forge.r-project.org">http://tlocoh.r-forge.r-project.org</a></span><span
style="color:black"><o:p></o:p></span></p>
<p class="MsoNormal"><span style="color:black"><o:p> </o:p></span></p>
</div>
<br>
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<br>
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