<br><br><div class="gmail_quote">On 13 September 2012 09:49, Damien Georges <span dir="ltr"><<a href="mailto:damien.georges2@gmail.com" target="_blank">damien.georges2@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
<div>Dear Pablo,<br>
<br>
There is no way to extract variables importance from a Ensemble
model because it's not calculated yet.. We are thinking about the
way to implement it because it's a really time consuming step..
Concerning the response plots, the problem is the same.. <br>
I will tell you when this functionalities will be ready.<br>
<br>
Cheers,<br>
<br>
Damien. <br><div><div class="h5">Dear Damien, thanks for the responses to this threat. I however have a question/observation about the variables importance in a ensemble of models. How do you really interpret the variable importance coming from an ensemble of models? Imaging two algorithms gave you high AUC values so they are considered good models, but choose different environmental variables, what would be the variable importance result of the ensemble? I find the interpretation of this a bit tricky. and not that straight forward.</div>
</div></div></div></blockquote><div><br></div><div>Jesus </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div bgcolor="#FFFFFF" text="#000000"><div><div><div class="h5">
</div></div></div></div></blockquote><div> </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div bgcolor="#FFFFFF" text="#000000"><div><div><div class="h5">On 12/09/2012 17:59, Pablo Riul wrote:<br>
</div></div></div><div><div class="h5">
<blockquote type="cite">
<div style="font-size:18pt;font-family:times new roman,new york,times,serif">
<div><span>Dear Damien,</span></div>
<div style="font-style:normal;font-size:24px;background-color:transparent;font-family:'times new roman','new york',times,serif"><span><br>
</span></div>
<div style="font-style:normal;font-size:24px;background-color:transparent;font-family:'times new roman','new york',times,serif"><span>Ok, thanks! Just
another thing... I'm not sure if you received my anterior
message. </span> I tried to get the var importances of a
consensus model using something like getModelsVarImport() to
an object created by the BIOMOD_EnsembleModeling() function
but it was not possible. Is there any way to get these
information? Also, will be possible to get the response plots
for this same object?</div>
<div style="font-style:normal;font-size:24px;background-color:transparent;font-family:'times new roman','new york',times,serif"><br>
</div>
<div style="font-style:normal;font-size:24px;background-color:transparent;font-family:'times new roman','new york',times,serif">Cheers,</div>
<div> </div>
<div>Pablo Riul<br>
<br>
Departamento de Engenharia e Meio Ambiente<br>
Centro de Ciências Aplicadas e Educação<br>
Universidade Federal da Paraíba - Campus IV<br>
R: Mangueira s/n, Centro CEP: 58.297-000<br>
Rio Tinto - Paraíba - Brasil</div>
<div><br>
</div>
<div style="font-size:18pt;font-family:'times new roman','new york',times,serif">
<div style="font-size:12pt;font-family:'times new roman','new york',times,serif">
<div dir="ltr"> <font face="Arial">
<hr size="1"> <b><span style="font-weight:bold">De:</span></b>
Damien Georges <a href="mailto:damien.georges2@gmail.com" target="_blank"><damien.georges2@gmail.com></a><br>
<b><span style="font-weight:bold">Para:</span></b>
<a href="mailto:biomod-commits@lists.r-forge.r-project.org" target="_blank">biomod-commits@lists.r-forge.r-project.org</a>; Pablo Riul
<a href="mailto:pabloriul@yahoo.com.br" target="_blank"><pabloriul@yahoo.com.br></a> <br>
<b><span style="font-weight:bold">Enviadas:</span></b>
Quarta-feira, 12 de Setembro de 2012 10:52<br>
<b><span style="font-weight:bold">Assunto:</span></b>
Re: [Biomod-commits] Warning in BIOMOD_FormatingData<br>
</font> </div>
<br>
<div>
<div>
<div>Dear Pablo,<br>
<br>
Don't worry about it.. It's just a warning indicating
that some function of raster package have changed of
names.. <br>
I took this into account in the last biomod2 version
so warnings will disappear when you'll update the
package .<br>
<br>
Best,<br>
<br>
Damien <br>
<br>
On 12/09/2012 14:46, Pablo Riul wrote:<br>
</div>
<blockquote type="cite">
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<div><span>Dear list,</span></div>
<div style="font-style:normal;font-size:24px;background-color:transparent;font-family:'times new roman','new york',times,serif"><span><br>
</span></div>
<div style="font-style:normal;font-size:24px;background-color:transparent;font-family:'times new roman','new york',times,serif"><span>I updated my packages and I'm now
using raster 2.0-12. When I created myBiomodData
using the BIOMOD_FormatingData function I
received the warning below:</span></div>
<div style="font-style:normal;font-size:24px;background-color:transparent;font-family:'times new roman','new york',times,serif"><span><br>
</span></div>
<div style="font-style:normal;font-size:24px;background-color:transparent;font-family:'times new roman','new york',times,serif"><span>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco;color:#1c39f6"><span style="color:#99228d">> </span>myBiomodData
<- BIOMOD_FormatingData(resp.var =
myResp,expl.var = myExpl,resp.xy =
myRespXY,<a href="http://resp.name" target="_blank">resp.name</a> = myRespName,PA.nb.rep =
1,PA.nb.absences = 1000,PA.strategy =
'random')</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco;min-height:19.0px"><br>
</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco">-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
Mhisp Data Formating
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco;min-height:19.0px"><br>
</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco"> ! No data has
been set aside for modeling evaluation</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco"> > Pseudo
Absences Selection checkings...</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco"> > random
pseudo absences selection</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco"> > Pseudo
absences are selected in explanatory variables</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco">-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
Done
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco;color:#ff1f17">Warning
message:</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco;color:#ff1f17">In
.local(x, rcl, ...) :</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco;color:#ff1f17">
raster function "reclass" has been deprecated
and will be removed from the package;</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco;color:#ff1f17">Please
use "reclassify" instead</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco;color:#ff1f17"><br>
</div>
<div style="margin:0.0px 0.0px 0.0px 0.0px;font:14.2px Monaco;color:#ff1f17"><br>
</div>
</span></div>
<div>Its not a problem now, but maybe in next
updates of package raster the reclass function may
be not available anymore.</div>
<div><br>
</div>
<div style="font-style:normal;font-size:24px;background-color:transparent;font-family:'times new roman','new york',times,serif">Cheers,</div>
<div style="font-style:normal;font-size:24px;background-color:transparent;font-family:'times new roman','new york',times,serif"> </div>
<div>Pablo Riul<br>
<br>
Departamento de Engenharia e Meio Ambiente<br>
Centro de Ciências Aplicadas e Educação<br>
Universidade Federal da Paraíba - Campus IV<br>
R: Mangueira s/n, Centro CEP: 58.297-000<br>
Rio Tinto - Paraíba - Brasil</div>
</div>
<br>
<fieldset></fieldset>
<br>
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