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joelnitta/canaper: v0.0.1

Joel Nitta


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    <subfield code="a">NEW FEATURES
&lt;ul&gt;
&lt;li&gt;&lt;p&gt;Add &lt;code&gt;cpr_rand_comm()&lt;/code&gt; function for generating a random community
2f3318c1d62f401d7c99bdcc16c64194359c3fbe&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;&lt;p&gt;Implement user-provided community matrix randomization functions&lt;/p&gt;
&lt;/li&gt;
&lt;/ul&gt;
BREAKING CHANGES
&lt;ul&gt;
&lt;li&gt;Use &lt;code&gt;vegan&lt;/code&gt; for community matrix randomizations instead of &lt;code&gt;picante&lt;/code&gt;
b0a2d47130398eb62e28eba4783057f781763645&lt;/li&gt;
&lt;/ul&gt;
BUG FIXES
&lt;ul&gt;
&lt;li&gt;&lt;p&gt;Fix error in classification of endemism types with &lt;code&gt;cpr_classify_endem()&lt;/code&gt;,
where super-endemic cells were previously being assigned if &lt;code&gt;pe_obs_p_upper&lt;/code&gt;
&lt;strong&gt;or&lt;/strong&gt; &lt;code&gt;pe_obs_alt_p_upper&lt;/code&gt; were highly significant (P &amp;gt; 0.99), to requiring
&lt;strong&gt;both&lt;/strong&gt; to be highly significant 2f3318c1d62f401d7c99bdcc16c64194359c3fbe&lt;/p&gt;
&lt;/li&gt;
&lt;li&gt;&lt;p&gt;Fix calculation of RPD, RPE where alternative tree had all branch lengths
converted to same value, to converting only non-zero branch lengths to same
value 50ed6e975d14adba334f06a984d521ff69ed961c&lt;/p&gt;
&lt;/li&gt;
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