TITLE: No Title
AUTHORS: 

[DESCRIPTION]
<p>This handout is based on the Caltech Reproducibility resource that was created by Code Ocean, Addgene, and protocols.io. It is extended to cover more tools and resources for biomedical scientists specifically.</p>
<p> </p>
<p>Please feel free to clone and modify it. If you do, would be wonderful to see you share the new resource in this group. Also, please suggest other useful resources.</p>

[GUIDELINES]
<p><span style="font-weight: 400;">Practical tips for reproducibility</span></p>
<p> </p>
<p><strong>1. Plan for reproducibility before you start</strong></p>
<p> </p>
<ul>
<li><strong>Write a study plan or protocol</strong> and track new versions.</li>
<li><strong>Set-up a reproducible project </strong>using an electronic lab notebook to organize and track your work. Avoid saving proprietary file formats.</li>
</ul>
<p> </p>
<p><strong>2. Keep track of things</strong></p>
<p> </p>
<ul>
<li><strong>Preregister</strong> important study design and analysis information. Free tools to help you make your first registration include <a href="https://aspredicted.org/" target="_blank">AsPredicted</a>, <a href="https://osf.io/" target="_blank">Open Science Framework</a>, and <a href="https://cos.io/rr/" target="_blank">Registered Reports</a>. Clinical trials use <a href="https://clinicaltrials.gov/" target="_blank">Clinicaltrials.gov</a>.</li>
<li><strong>Track changes</strong> to your files using version control.</li>
<li><strong>Document</strong> everything done by hand in a README file and data dictionary. <strong>Karl Broman’s Data Organization module:</strong> <a href="http://kbroman.org/dataorg/pages/dictionary.html" target="_blank">http://kbroman.org/dataorg/pages/dictionary.html</a></li>
</ul>
<p> </p>
<p><strong>3. Report your research transparently</strong></p>
<p> </p>
<ul>
<li><strong>Share your protocols and interventions</strong> explicitly and transparently.</li>
<li><strong>Write a transparent report</strong>. Guidelines from the <a href="http://www.equator-network.org/" target="_blank">Equator Network</a> or processes like <a href="https://cos.io/rr/" target="_blank">Registered Reports</a> can help.</li>
</ul>
<p> </p>
<p><strong>4. Archive + share your materials</strong></p>
<p> </p>
<p>   <strong>i. Data</strong></p>
<ul>
<li>Avoid supplementary files, licence, and share your data using a repository. <strong>How to License Research Data</strong>: <a href="http://www.dcc.ac.uk/resources/how-guides/license-research-data" target="_blank">http://www.dcc.ac.uk/resources/how-guides/license-research-data</a>.</li>
</ul>
<p><strong>   ii. Materials &amp; reagents</strong></p>
<ul>
<li>Licence your published materials so they can be reused. <strong>Creative Commons License Picker</strong>: <a href="https://creativecommons.org/choose/" target="_blank">https://creativecommons.org/choose/</a></li>
<li>Deposit reagents with repositories like <a href="https://www.addgene.org/" target="_blank">Addgene</a>, <a href="https://bdsc.indiana.edu/" target="_blank">The Bloomington Drosophila Stock Center</a>, and <a href="https://www.atcc.org/" target="_blank">ATCC</a> to make them easily accessible to other researchers.</li>
</ul>
<p><strong>   iii. Software</strong></p>
<p> </p>
<ul>
<li>Licence your code using <a href="https://codeocean.com/" target="_blank">Code Ocean</a> or <a href="https://github.com/" target="_blank">Github</a>. <strong>Open Source Initiative: About Open Source Licences</strong>: <a href="https://opensource.org/licenses" target="_blank">https://opensource.org/licenses</a>.</li>
</ul>
<p> </p>
<p><strong>5. Further reading:</strong></p>
<p> </p>
<ul>
<li style="font-weight: 400;"><strong>Ten Simple Rules for Reproducible Computational Research</strong><span style="font-weight: 400;">: </span><a href="&quot;http://journals.plos.org/ploscompbiol/article?" target="_blank"><span style="font-weight: 400;">http://journals.plos.org/ploscompbiol/article?</span></a></li>
<li style="font-weight: 400;"><strong>Reproducibility in Science</strong><span style="font-weight: 400;">: </span><a href="http://ropensci.github.io/reproducibility-guide/" target="_blank"><span style="font-weight: 400;">http://ropensci.github.io/reproducibility-guide/</span></a></li>
<li style="font-weight: 400;"><strong>Open Science MOOC</strong><span style="font-weight: 400;">: </span><span style="font-weight: 400;"><a href="https://opensciencemooc.eu/" target="_blank">https://opensciencemooc.eu/</a></span></li>
<li style="font-weight: 400;"><strong>Tools and Resources for Reproducibility Series at protocols.io: </strong><a href="https://www.protocols.io/groups/tools-and-resources-for-reproducibility" target="_blank">https://www.protocols.io/groups/tools-and-resources-for-reproducibility</a></li>
</ul>

[STEPS]
?. 
?. 
?. 
?. 
?. 
?. 
?.