index.xml

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    <title>Roth-Lab</title>
    <link>https://roth-lab.github.io/</link>
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    <description>Roth-Lab</description>
    <generator>Wowchemy (https://wowchemy.com)</generator><language>en-us</language><lastBuildDate>Sat, 01 Jun 2030 13:00:00 +0000</lastBuildDate>
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      <title>Roth-Lab</title>
      <link>https://roth-lab.github.io/</link>
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    <item>
      <title>Example Talk</title>
      <link>https://roth-lab.github.io/talk/example-talk/</link>
      <pubDate>Sat, 01 Jun 2030 13:00:00 +0000</pubDate>
      <guid>https://roth-lab.github.io/talk/example-talk/</guid>
      <description>&lt;div class=&#34;alert alert-note&#34;&gt;
  &lt;div&gt;
    Click on the &lt;strong&gt;Slides&lt;/strong&gt; button above to view the built-in slides feature.
  &lt;/div&gt;
&lt;/div&gt;
&lt;p&gt;Slides can be added in a few ways:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;&lt;strong&gt;Create&lt;/strong&gt; slides using Wowchemy&amp;rsquo;s &lt;a href=&#34;https://wowchemy.com/docs/managing-content/#create-slides&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;&lt;em&gt;Slides&lt;/em&gt;&lt;/a&gt; feature and link using &lt;code&gt;slides&lt;/code&gt; parameter in the front matter of the talk file&lt;/li&gt;
&lt;li&gt;&lt;strong&gt;Upload&lt;/strong&gt; an existing slide deck to &lt;code&gt;static/&lt;/code&gt; and link using &lt;code&gt;url_slides&lt;/code&gt; parameter in the front matter of the talk file&lt;/li&gt;
&lt;li&gt;&lt;strong&gt;Embed&lt;/strong&gt; your slides (e.g. Google Slides) or presentation video on this page using &lt;a href=&#34;https://wowchemy.com/docs/writing-markdown-latex/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;shortcodes&lt;/a&gt;.&lt;/li&gt;
&lt;/ul&gt;
&lt;p&gt;Further event details, including &lt;a href=&#34;https://wowchemy.com/docs/writing-markdown-latex/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;page elements&lt;/a&gt; such as image galleries, can be added to the body of this page.&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>Lab first social event at Kitsilano Beach</title>
      <link>https://roth-lab.github.io/post/social_kits/</link>
      <pubDate>Thu, 07 Oct 2021 00:00:00 +0000</pubDate>
      <guid>https://roth-lab.github.io/post/social_kits/</guid>
      <description>&lt;h1 id=&#34;lab-first-social-event-at-kitsilano-beach-&#34;&gt;Lab first social event at Kitsilano Beach 👋👋👋👋👋👋&lt;/h1&gt;
</description>
    </item>
    
    <item>
      <title>TFRI single cell data analysis</title>
      <link>https://roth-lab.github.io/project/tfri/</link>
      <pubDate>Thu, 07 Oct 2021 00:00:00 +0000</pubDate>
      <guid>https://roth-lab.github.io/project/tfri/</guid>
      <description></description>
    </item>
    
    <item>
      <title>Pyclone-vi</title>
      <link>https://roth-lab.github.io/project/pyclone-vi/</link>
      <pubDate>Fri, 23 Jul 2021 00:00:00 +0000</pubDate>
      <guid>https://roth-lab.github.io/project/pyclone-vi/</guid>
      <description></description>
    </item>
    
    <item>
      <title>Slides</title>
      <link>https://roth-lab.github.io/slides/example/</link>
      <pubDate>Tue, 05 Feb 2019 00:00:00 +0000</pubDate>
      <guid>https://roth-lab.github.io/slides/example/</guid>
      <description>&lt;h1 id=&#34;create-slides-in-markdown-with-wowchemy&#34;&gt;Create slides in Markdown with Wowchemy&lt;/h1&gt;
&lt;p&gt;&lt;a href=&#34;https://wowchemy.com/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Wowchemy&lt;/a&gt; | &lt;a href=&#34;https://owchemy.com/docs/managing-content/#create-slides&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Documentation&lt;/a&gt;&lt;/p&gt;
&lt;hr&gt;
&lt;h2 id=&#34;features&#34;&gt;Features&lt;/h2&gt;
&lt;ul&gt;
&lt;li&gt;Efficiently write slides in Markdown&lt;/li&gt;
&lt;li&gt;3-in-1: Create, Present, and Publish your slides&lt;/li&gt;
&lt;li&gt;Supports speaker notes&lt;/li&gt;
&lt;li&gt;Mobile friendly slides&lt;/li&gt;
&lt;/ul&gt;
&lt;hr&gt;
&lt;h2 id=&#34;controls&#34;&gt;Controls&lt;/h2&gt;
&lt;ul&gt;
&lt;li&gt;Next: &lt;code&gt;Right Arrow&lt;/code&gt; or &lt;code&gt;Space&lt;/code&gt;&lt;/li&gt;
&lt;li&gt;Previous: &lt;code&gt;Left Arrow&lt;/code&gt;&lt;/li&gt;
&lt;li&gt;Start: &lt;code&gt;Home&lt;/code&gt;&lt;/li&gt;
&lt;li&gt;Finish: &lt;code&gt;End&lt;/code&gt;&lt;/li&gt;
&lt;li&gt;Overview: &lt;code&gt;Esc&lt;/code&gt;&lt;/li&gt;
&lt;li&gt;Speaker notes: &lt;code&gt;S&lt;/code&gt;&lt;/li&gt;
&lt;li&gt;Fullscreen: &lt;code&gt;F&lt;/code&gt;&lt;/li&gt;
&lt;li&gt;Zoom: &lt;code&gt;Alt + Click&lt;/code&gt;&lt;/li&gt;
&lt;li&gt;&lt;a href=&#34;https://github.com/hakimel/reveal.js#pdf-export&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;PDF Export&lt;/a&gt;: &lt;code&gt;E&lt;/code&gt;&lt;/li&gt;
&lt;/ul&gt;
&lt;hr&gt;
&lt;h2 id=&#34;code-highlighting&#34;&gt;Code Highlighting&lt;/h2&gt;
&lt;p&gt;Inline code: &lt;code&gt;variable&lt;/code&gt;&lt;/p&gt;
&lt;p&gt;Code block:&lt;/p&gt;
&lt;pre&gt;&lt;code class=&#34;language-python&#34;&gt;porridge = &amp;quot;blueberry&amp;quot;
if porridge == &amp;quot;blueberry&amp;quot;:
    print(&amp;quot;Eating...&amp;quot;)
&lt;/code&gt;&lt;/pre&gt;
&lt;hr&gt;
&lt;h2 id=&#34;math&#34;&gt;Math&lt;/h2&gt;
&lt;p&gt;In-line math: $x + y = z$&lt;/p&gt;
&lt;p&gt;Block math:&lt;/p&gt;
&lt;p&gt;$$
f\left( x \right) = ;\frac{{2\left( {x + 4} \right)\left( {x - 4} \right)}}{{\left( {x + 4} \right)\left( {x + 1} \right)}}
$$&lt;/p&gt;
&lt;hr&gt;
&lt;h2 id=&#34;fragments&#34;&gt;Fragments&lt;/h2&gt;
&lt;p&gt;Make content appear incrementally&lt;/p&gt;
&lt;pre&gt;&lt;code&gt;{{% fragment %}} One {{% /fragment %}}
{{% fragment %}} **Two** {{% /fragment %}}
{{% fragment %}} Three {{% /fragment %}}
&lt;/code&gt;&lt;/pre&gt;
&lt;p&gt;Press &lt;code&gt;Space&lt;/code&gt; to play!&lt;/p&gt;
&lt;p&gt;&lt;span class=&#34;fragment &#34; &gt;
One
&lt;/span&gt;
&lt;span class=&#34;fragment &#34; &gt;
&lt;strong&gt;Two&lt;/strong&gt;
&lt;/span&gt;
&lt;span class=&#34;fragment &#34; &gt;
Three
&lt;/span&gt;&lt;/p&gt;
&lt;hr&gt;
&lt;p&gt;A fragment can accept two optional parameters:&lt;/p&gt;
&lt;ul&gt;
&lt;li&gt;&lt;code&gt;class&lt;/code&gt;: use a custom style (requires definition in custom CSS)&lt;/li&gt;
&lt;li&gt;&lt;code&gt;weight&lt;/code&gt;: sets the order in which a fragment appears&lt;/li&gt;
&lt;/ul&gt;
&lt;hr&gt;
&lt;h2 id=&#34;speaker-notes&#34;&gt;Speaker Notes&lt;/h2&gt;
&lt;p&gt;Add speaker notes to your presentation&lt;/p&gt;
&lt;pre&gt;&lt;code class=&#34;language-markdown&#34;&gt;{{% speaker_note %}}
- Only the speaker can read these notes
- Press `S` key to view
{{% /speaker_note %}}
&lt;/code&gt;&lt;/pre&gt;
&lt;p&gt;Press the &lt;code&gt;S&lt;/code&gt; key to view the speaker notes!&lt;/p&gt;
&lt;aside class=&#34;notes&#34;&gt;
  &lt;ul&gt;
&lt;li&gt;Only the speaker can read these notes&lt;/li&gt;
&lt;li&gt;Press &lt;code&gt;S&lt;/code&gt; key to view&lt;/li&gt;
&lt;/ul&gt;

&lt;/aside&gt;
&lt;hr&gt;
&lt;h2 id=&#34;themes&#34;&gt;Themes&lt;/h2&gt;
&lt;ul&gt;
&lt;li&gt;black: Black background, white text, blue links (default)&lt;/li&gt;
&lt;li&gt;white: White background, black text, blue links&lt;/li&gt;
&lt;li&gt;league: Gray background, white text, blue links&lt;/li&gt;
&lt;li&gt;beige: Beige background, dark text, brown links&lt;/li&gt;
&lt;li&gt;sky: Blue background, thin dark text, blue links&lt;/li&gt;
&lt;/ul&gt;
&lt;hr&gt;
&lt;ul&gt;
&lt;li&gt;night: Black background, thick white text, orange links&lt;/li&gt;
&lt;li&gt;serif: Cappuccino background, gray text, brown links&lt;/li&gt;
&lt;li&gt;simple: White background, black text, blue links&lt;/li&gt;
&lt;li&gt;solarized: Cream-colored background, dark green text, blue links&lt;/li&gt;
&lt;/ul&gt;
&lt;hr&gt;

&lt;section data-noprocess data-shortcode-slide
  
      
      data-background-image=&#34;/media/boards.jpg&#34;
  &gt;

&lt;h2 id=&#34;custom-slide&#34;&gt;Custom Slide&lt;/h2&gt;
&lt;p&gt;Customize the slide style and background&lt;/p&gt;
&lt;pre&gt;&lt;code class=&#34;language-markdown&#34;&gt;{{&amp;lt; slide background-image=&amp;quot;/media/boards.jpg&amp;quot; &amp;gt;}}
{{&amp;lt; slide background-color=&amp;quot;#0000FF&amp;quot; &amp;gt;}}
{{&amp;lt; slide class=&amp;quot;my-style&amp;quot; &amp;gt;}}
&lt;/code&gt;&lt;/pre&gt;
&lt;hr&gt;
&lt;h2 id=&#34;custom-css-example&#34;&gt;Custom CSS Example&lt;/h2&gt;
&lt;p&gt;Let&amp;rsquo;s make headers navy colored.&lt;/p&gt;
&lt;p&gt;Create &lt;code&gt;assets/css/reveal_custom.css&lt;/code&gt; with:&lt;/p&gt;
&lt;pre&gt;&lt;code class=&#34;language-css&#34;&gt;.reveal section h1,
.reveal section h2,
.reveal section h3 {
  color: navy;
}
&lt;/code&gt;&lt;/pre&gt;
&lt;hr&gt;
&lt;h1 id=&#34;questions&#34;&gt;Questions?&lt;/h1&gt;
&lt;p&gt;&lt;a href=&#34;https://github.com/wowchemy/wowchemy-hugo-modules/discussions&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Ask&lt;/a&gt;&lt;/p&gt;
&lt;p&gt;&lt;a href=&#34;https://wowchemy.com/docs/managing-content/#create-slides&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;Documentation&lt;/a&gt;&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title>PyClone</title>
      <link>https://roth-lab.github.io/publication/pyclone/</link>
      <pubDate>Sun, 16 Mar 2014 00:00:00 +0000</pubDate>
      <guid>https://roth-lab.github.io/publication/pyclone/</guid>
      <description>&lt;div class=&#34;alert alert-note&#34;&gt;
  &lt;div&gt;
    Click the &lt;em&gt;Cite&lt;/em&gt; button above to demo the feature to enable visitors to import publication metadata into their reference management software.
  &lt;/div&gt;
&lt;/div&gt;
&lt;div class=&#34;alert alert-note&#34;&gt;
  &lt;div&gt;
    Create your slides in Markdown - click the &lt;em&gt;Slides&lt;/em&gt; button to check out the example.
  &lt;/div&gt;
&lt;/div&gt;
&lt;p&gt;Supplementary notes can be added here, including &lt;a href=&#34;https://wowchemy.com/docs/writing-markdown-latex/&#34; target=&#34;_blank&#34; rel=&#34;noopener&#34;&gt;code, math, and images&lt;/a&gt;.&lt;/p&gt;
</description>
    </item>
    
    <item>
      <title></title>
      <link>https://roth-lab.github.io/admin/config.yml</link>
      <pubDate>Mon, 01 Jan 0001 00:00:00 +0000</pubDate>
      <guid>https://roth-lab.github.io/admin/config.yml</guid>
      <description></description>
    </item>
    
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