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<h1>Pilot Project for Medical Librarians to Document and Preserve Scientific Code at their Institutions!</h1> <h3>About the National Network of Libraries of Medicine (NNLM) and NNCO</h3> <p>NNCO is the National Network Coordinating Office which leads the NNLM.</p> <h2>Motivation</h2> <ul> <li>Scientific Reproducibility</li> </ul> <h2>Levels of engagement</h2> <ul> <li>General librarians</li> <li>Advertising Code<ul> <li>Integration into existing data catalogs</li> </ul> </li> <li> <p>Integration Testing</p> </li> <li> <p>Code-savvy librarians</p> </li> <li>Help with continuous integration<ul> <li>e.g. <a href="https://github.com/travis-ci/travis-ci" rel="nofollow">https://github.com/travis-ci/travis-ci</a></li> </ul> </li> <li>Help with containerization</li> <li>Help with code refactoring</li> </ul> <h2>Initial Ideas</h2> <ul> <li>People write new code themselves</li> <li>1-2 years - code becomes dead Identification of projects</li> <li>Personal contacts</li> <li>~4 projects/institution Time commitment</li> <li>1 hour per week? (total of 8 hours)</li> <li>Is that feasible? Things to measure</li> <li>Interaction between librarians and biomedical coders</li> <li>Improvement in documentation</li> <li>Increase in understanding of code by librarians</li> <li>Code within environment</li> </ul> <h3>Other Resources (could use some indexing)</h3> <ul> <li><a href="https://datashare.ucsf.edu/stash" rel="nofollow">https://datashare.ucsf.edu/stash</a></li> <li>California Digital Library</li> <li><a href="https://www.cdlib.org/" rel="nofollow">https://www.cdlib.org/</a></li> <li>bio.tools</li> <li><a href="https://ctsi.ucsf.edu/" rel="nofollow">https://ctsi.ucsf.edu/</a></li> <li><a href="http://accelerate.ucsf.edu/consult" rel="nofollow">http://accelerate.ucsf.edu/consult</a></li> <li>Data science core help</li> <li><a href="https://omictools.com/" rel="nofollow">https://omictools.com/</a></li> <li><a href="https://github.com/seandavi/awesome-single-cell" rel="nofollow">https://github.com/seandavi/awesome-single-cell</a></li> <li><a href="https://osf.io/vg7rn/" rel="nofollow">https://osf.io/vg7rn/</a> (NYU/Pitt/NNCO Data Catalog)</li> <li><a href="https://osf.io/zy79g/" rel="nofollow">https://osf.io/zy79g/</a> (Software as a research object)</li> <li><a href="https://gitlab.com/occam-archive/occam/wikis/Publications/Papers" rel="nofollow">https://gitlab.com/occam-archive/occam/wikis/Publications/Papers</a></li> <li><a href="http://wssspe.researchcomputing.org.uk/" rel="nofollow">http://wssspe.researchcomputing.org.uk/</a></li> <li><a href="http://search.hsls.pitt.edu" rel="nofollow">search.hsls.pitt.edu</a></li> <li><a href="https://crc.pitt.edu/" rel="nofollow">https://crc.pitt.edu/</a></li> <li><a href="http://datamed.org" rel="nofollow">datamed.org</a></li> <li><a href="http://cyverse.org" rel="nofollow">cyverse.org</a></li> <li><a href="http://www.arl.org/news/arl-news/4469#.WqVWRZPwaRu" rel="nofollow">http://www.arl.org/news/arl-news/4469#.WqVWRZPwaRu</a></li> </ul> <h3>Notes from active discussions with network libraries (Pitt, UCSF)</h3> <ul> <li>Metadata does not necessarily exist.</li> <li>Making the library itself more external facing</li> <li>Potential to Involve NLM Data Science Capstone Project Participants</li> <li>Are there things where "best practices" are higher throughput What does interaction look like?</li> <li>Hackathon-like meetings?</li> <li>User groups?</li> <li>Code review?</li> <li>Creation of services?</li> </ul>
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