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cangermueller/deepcpg: Adds evaluation scripts and notebooks, improves documentation, and fixes minor bugs.

Christof Angermueller


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&lt;li&gt;Adds &lt;a href="http://deepcpg.readthedocs.io/en/latest/scripts/index.html#module-scripts.dcpg_eval_perf"&gt;dcpg_eval_perf.py&lt;/a&gt; and R markdown files for computing and visualizing performance metrics genome-wide and in annotated contexts.&lt;/li&gt;
&lt;li&gt;Adds &lt;a href="http://deepcpg.readthedocs.io/en/latest/scripts/index.html#module-scripts.dcpg_snp"&gt;dcpg_snp.py&lt;/a&gt; for computing mutation effects.&lt;/li&gt;
&lt;li&gt;Adds &lt;a href="https://github.com/cangermueller/deepcpg/tree/master/examples"&gt;notebooks&lt;/a&gt; on computing mutation effects and predicting inter-cell statistics.&lt;/li&gt;
&lt;li&gt;Adds documentation of &lt;a href="http://deepcpg.readthedocs.io/latest/scripts/index.html"&gt;DeepCpG scripts&lt;/a&gt;.&lt;/li&gt;
&lt;li&gt;Adds integration tests.&lt;/li&gt;
&lt;li&gt;Includes minor bug-fixes.&lt;/li&gt;
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