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| <h1>Source code for ete4.phylo.evolevents</h1><div class="highlight"><pre> | ||
| <span></span><span class="n">__all__</span> <span class="o">=</span> <span class="p">[</span><span class="s2">"EvolEvent"</span><span class="p">]</span> | ||
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| <div class="viewcode-block" id="EvolEvent"> | ||
| <a class="viewcode-back" href="../../../reference/reference_phylo.html#ete4.phylo.EvolEvent">[docs]</a> | ||
| <span class="k">class</span> <span class="nc">EvolEvent</span><span class="p">:</span> | ||
| <span class="w"> </span><span class="sd">""" Basic evolutionary event. It stores all the information about an</span> | ||
| <span class="sd"> event(node) ocurred in a phylogenetic tree.</span> | ||
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| <span class="sd"> :attr:`etype` : ``D`` (Duplication), ``S`` (Speciation), ``L`` (gene loss),</span> | ||
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| <span class="sd"> :attr:`in_seqs` : the list of sequences in one side of the event.</span> | ||
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| <span class="sd"> :attr:`out_seqs` : the list of sequences in the other side of the event</span> | ||
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| <span class="sd"> :attr:`node` : link to the event node in the tree</span> | ||
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| <span class="sd"> """</span> | ||
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| <span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">etype</span> <span class="o">=</span> <span class="kc">None</span> <span class="c1"># 'S=speciation D=duplication'</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">in_seqs</span> <span class="o">=</span> <span class="p">[]</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">out_seqs</span> <span class="o">=</span> <span class="p">[]</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">dup_score</span> <span class="o">=</span> <span class="kc">None</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">sos</span> <span class="o">=</span> <span class="kc">None</span> | ||
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| <span class="c1"># Not documented</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">inparalogs</span> <span class="o">=</span> <span class="kc">None</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">outparalogs</span> <span class="o">=</span> <span class="kc">None</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">outgroup_spcs</span> <span class="o">=</span> <span class="kc">None</span> <span class="c1"># outgroup</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">e_newick</span> <span class="o">=</span> <span class="kc">None</span> <span class="c1">#</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">root_age</span> <span class="o">=</span> <span class="kc">None</span> <span class="c1"># estimated time for the outgroup node</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">orthologs</span> <span class="o">=</span> <span class="kc">None</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">famSize</span> <span class="o">=</span> <span class="kc">None</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">seed</span> <span class="o">=</span> <span class="kc">None</span> <span class="c1"># Seed ID used to start the phylogenetic pipeline</span> | ||
| <span class="bp">self</span><span class="o">.</span><span class="n">branch_supports</span> <span class="o">=</span> <span class="p">[]</span></div> | ||
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