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             spatial point density." />




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    <h1>Breeding density areas (aka, core habitat areas)</h1>
    <small class="dont-index">Source: <a href='https://github.com/jeffreyevans/spatialEco/blob/master/R/breeding.density.R'><code>R/breeding.density.R</code></a></small>
    <div class="hidden name"><code>breeding.density.Rd</code></div>
    </div>

    <div class="ref-description">
    <p>Calculates breeding density areas base on population counts and 
             spatial point density.</p>
    </div>

    <pre class="usage"><span class='fu'>breeding.density</span><span class='op'>(</span><span class='va'>x</span>, <span class='va'>pop</span>, p <span class='op'>=</span> <span class='fl'>0.75</span>, bw <span class='op'>=</span> <span class='fl'>6400</span>, b <span class='op'>=</span> <span class='fl'>8500</span>, self <span class='op'>=</span> <span class='cn'>TRUE</span><span class='op'>)</span></pre>

    <h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a>Arguments</h2>
    <table class="ref-arguments">
    <colgroup><col class="name" /><col class="desc" /></colgroup>
    <tr>
      <th>x</th>
      <td><p>sp SpatialPointsDataFrame object</p></td>
    </tr>
    <tr>
      <th>pop</th>
      <td><p>Population count/density column in x@data</p></td>
    </tr>
    <tr>
      <th>p</th>
      <td><p>Target percent of population</p></td>
    </tr>
    <tr>
      <th>bw</th>
      <td><p>Bandwidth distance for the kernel estimate (default 8500)</p></td>
    </tr>
    <tr>
      <th>b</th>
      <td><p>Buffer distance (default 8500)</p></td>
    </tr>
    <tr>
      <th>self</th>
      <td><p>(TRUE/FALSE) Should source observations be included in 
density (default TRUE)</p></td>
    </tr>
    </table>

    <h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2>

    <p>A list object with:</p><ul>
<li><p>pop.pts   sp point object with points identified within the specified p</p></li>
<li><p>pop.area  sp polygon object of buffered points specified by parameter b</p></li>
<li><p>bandwidth Specified distance bandwidth used in identifying neighbor counts</p></li>
<li><p>buffer    Specified buffer distance used in buffering points for pop.area</p></li>
<li><p>p         Specified population percent</p></li>
</ul>

    <h2 class="hasAnchor" id="note"><a class="anchor" href="#note"></a>Note</h2>

    <p>The breeding density areas model identifies the Nth-percent population exhibiting 
the highest spatial density and counts/frequency. It then buffers these points by 
a specified distance to produce breeding area polygons. If you would like to recreate 
the results in Doherty et al., (2010), then define bw = 6400m and b[if p &lt; 0.75 
b = 6400m, | p &gt;= 0.75 b = 8500m]</p>
    <h2 class="hasAnchor" id="references"><a class="anchor" href="#references"></a>References</h2>

    <p>Doherty, K.E., J.D. Tack, J.S. Evans, D.E. Naugle (2010) Mapping breeding densities of 
  greater  sage-grouse: A tool for range-wide conservation planning.  
  Bureau of Land Management. Number L10PG00911</p>
    <h2 class="hasAnchor" id="author"><a class="anchor" href="#author"></a>Author</h2>

    <p>Jeffrey S. Evans  &lt;jeffrey_evans@tnc.org&gt;</p>

    <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
    <pre class="examples"><div class='input'><span class='kw'><a href='https://rdrr.io/r/base/library.html'>require</a></span><span class='op'>(</span><span class='va'><a href='https://github.com/edzer/sp/'>sp</a></span><span class='op'>)</span>
<span class='va'>n</span><span class='op'>=</span><span class='fl'>1500</span>
<span class='va'>bb</span> <span class='op'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/r/base/cbind.html'>rbind</a></span><span class='op'>(</span><span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span><span class='op'>(</span><span class='op'>-</span><span class='fl'>1281299</span>,<span class='op'>-</span><span class='fl'>761876.5</span><span class='op'>)</span>,<span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span><span class='op'>(</span><span class='fl'>1915337</span>,<span class='fl'>2566433.5</span><span class='op'>)</span><span class='op'>)</span>
  <span class='va'>bb.mat</span> <span class='op'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/r/base/cbind.html'>cbind</a></span><span class='op'>(</span><span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span><span class='op'>(</span><span class='va'>bb</span><span class='op'>[</span><span class='fl'>1</span>,<span class='fl'>1</span><span class='op'>]</span>, <span class='va'>bb</span><span class='op'>[</span><span class='fl'>1</span>,<span class='fl'>2</span><span class='op'>]</span>, <span class='va'>bb</span><span class='op'>[</span><span class='fl'>1</span>,<span class='fl'>2</span><span class='op'>]</span>, <span class='va'>bb</span><span class='op'>[</span><span class='fl'>1</span>,<span class='fl'>1</span><span class='op'>]</span><span class='op'>)</span>,   
                  <span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span><span class='op'>(</span><span class='va'>bb</span><span class='op'>[</span><span class='fl'>2</span>,<span class='fl'>1</span><span class='op'>]</span>, <span class='va'>bb</span><span class='op'>[</span><span class='fl'>2</span>,<span class='fl'>1</span><span class='op'>]</span>, <span class='va'>bb</span><span class='op'>[</span><span class='fl'>2</span>,<span class='fl'>2</span><span class='op'>]</span>, <span class='va'>bb</span><span class='op'>[</span><span class='fl'>2</span>,<span class='fl'>2</span><span class='op'>]</span><span class='op'>)</span><span class='op'>)</span>  
    <span class='va'>bbp</span> <span class='op'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/pkg/sp/man/SpatialPolygons.html'>Polygon</a></span><span class='op'>(</span><span class='va'>bb.mat</span><span class='op'>)</span>
     <span class='va'>s</span> <span class='op'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/pkg/sp/man/spsample.html'>spsample</a></span><span class='op'>(</span><span class='va'>bbp</span>, <span class='va'>n</span>, type<span class='op'>=</span><span class='st'>'random'</span><span class='op'>)</span>
        <span class='va'>pop</span> <span class='op'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/pkg/sp/man/SpatialPoints.html'>SpatialPointsDataFrame</a></span><span class='op'>(</span><span class='va'>s</span>, <span class='fu'><a href='https://rdrr.io/r/base/data.frame.html'>data.frame</a></span><span class='op'>(</span>ID<span class='op'>=</span><span class='fl'>1</span><span class='op'>:</span><span class='fu'><a href='https://rdrr.io/r/base/length.html'>length</a></span><span class='op'>(</span><span class='va'>s</span><span class='op'>)</span>, 
                                 counts<span class='op'>=</span><span class='fu'><a href='https://rdrr.io/r/stats/Uniform.html'>runif</a></span><span class='op'>(</span><span class='fu'><a href='https://rdrr.io/r/base/length.html'>length</a></span><span class='op'>(</span><span class='va'>s</span><span class='op'>)</span>, <span class='fl'>1</span>,<span class='fl'>250</span><span class='op'>)</span><span class='op'>)</span><span class='op'>)</span>

    <span class='va'>bd75</span> <span class='op'>&lt;-</span> <span class='fu'>breeding.density</span><span class='op'>(</span><span class='va'>pop</span>, pop<span class='op'>=</span><span class='st'>'counts'</span>, p<span class='op'>=</span><span class='fl'>0.75</span>, b<span class='op'>=</span><span class='fl'>8500</span>, bw<span class='op'>=</span><span class='fl'>6400</span><span class='op'>)</span>
     <span class='fu'><a href='https://rdrr.io/pkg/raster/man/plot.html'>plot</a></span><span class='op'>(</span><span class='va'>bd75</span><span class='op'>$</span><span class='va'>pop.area</span>, main<span class='op'>=</span><span class='st'>'75% breeding density areas'</span><span class='op'>)</span>
</div><div class='input'>       <span class='fu'><a href='https://rdrr.io/pkg/raster/man/plot.html'>plot</a></span><span class='op'>(</span><span class='va'>pop</span>, pch<span class='op'>=</span><span class='fl'>20</span>, col<span class='op'>=</span><span class='st'>'black'</span>, add<span class='op'>=</span><span class='cn'>TRUE</span><span class='op'>)</span>
</div><div class='input'>         <span class='fu'><a href='https://rdrr.io/pkg/raster/man/plot.html'>plot</a></span><span class='op'>(</span><span class='va'>bd75</span><span class='op'>$</span><span class='va'>pop.pts</span>, pch<span class='op'>=</span><span class='fl'>20</span>, col<span class='op'>=</span><span class='st'>'red'</span>, add<span class='op'>=</span><span class='cn'>TRUE</span><span class='op'>)</span>
</div><div class='img'><img src='breeding.density-1.png' alt='' width='700' height='433' /></div><div class='input'>
</div></pre>
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