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/srv/reproducible-results/rbuild-debian/r-b-build.EmrMMZj2/b2/python-cogent_2020.12.21a+dfsg-4+deb11u1_amd64.changes ¶

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830	········"2":·"py:method",	830	········"2":·"py:method",
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186	<p>Note:·names·present·in·only·one·of·the·two·trees·will·count·as	186	<p>Note:·names·present·in·only·one·of·the·two·trees·will·count·as
187	mismatches:·if·you·don’t·want·this·behavior,·strip·out·the·non-matching	187	mismatches:·if·you·don’t·want·this·behavior,·strip·out·the·non-matching
188	tips·first.</p>	188	tips·first.</p>
189	</dd></dl>	189	</dd></dl>

190	<dl·class="py·method">	190	<dl·class="py·method">
191	<dt·id="cogent3.core.tree.PhyloNode.compare_by_tip_distances">	191	<dt·id="cogent3.core.tree.PhyloNode.compare_by_tip_distances">
192	<code·class="sig-name·descname">compare_by_tip_distances</code><span·class="sig-paren">(</span><em·class="sig-param">other</em>,·<em·class="sig-param">sample=None</em>,·<em·class="sig-param">dist_f=<function·distance_from_r></em>,·<em·class="sig-param">shuffle_f=<bound·method·Random.shuffle·of·<random.Random·object·at·0x2197530>></em><span·class="sig-paren">)</span><a·class="headerlink"·href="#cogent3.core.tree.PhyloNode.compare_by_tip_distances"·title="Permalink·to·this·definition">¶</a></dt>	192	<code·class="sig-name·descname">compare_by_tip_distances</code><span·class="sig-paren">(</span><em·class="sig-param">other</em>,·<em·class="sig-param">sample=None</em>,·<em·class="sig-param">dist_f=<function·distance_from_r></em>,·<em·class="sig-param">shuffle_f=<bound·method·Random.shuffle·of·<random.Random·object·at·0xd576e0>></em><span·class="sig-paren">)</span><a·class="headerlink"·href="#cogent3.core.tree.PhyloNode.compare_by_tip_distances"·title="Permalink·to·this·definition">¶</a></dt>
193	<dd><p>Compares·self·to·other·using·tip-to-tip·distance·matrices.</p>	193	<dd><p>Compares·self·to·other·using·tip-to-tip·distance·matrices.</p>
194	<p>Value·returned·is·dist_f(m1,·m2)·for·the·two·matrices.·Default·is	194	<p>Value·returned·is·dist_f(m1,·m2)·for·the·two·matrices.·Default·is
195	to·use·the·Pearson·correlation·coefficient,·with·+1·giving·a·distance	195	to·use·the·Pearson·correlation·coefficient,·with·+1·giving·a·distance
196	of·0·and·-1·giving·a·distance·of·+1·(the·madimum·possible·value).	196	of·0·and·-1·giving·a·distance·of·+1·(the·madimum·possible·value).
197	Depending·on·the·application,·you·might·instead·want·to·use	197	Depending·on·the·application,·you·might·instead·want·to·use
198	distance_from_r_squared,·which·counts·correlations·of·both·+1·and·-1	198	distance_from_r_squared,·which·counts·correlations·of·both·+1·and·-1
199	as·identical·(0·distance).</p>	199	as·identical·(0·distance).</p>