Data Management and AccessibilityDeanna M. Church Staff Scientist, NCBI

@deannachurch Short Course in Medical Genetics 2013

The nature of data management has changed

Was…

NotesPictures of gelsAutoradiograms

Now…

NotesData imagesSequence files

http://www.sxc.hu/photo/1072645http://www.hcii.cmu.edu/M-HCL/2006/MEDRADProject/images/notebook.jpg

Electronic protocols: workflows

http://galaxy.popgenie.org

Electronic protocols: workflowsOften require a Unix environmentOften run on the command lineNot always easy to make work

Getting a handle on data

http://www.phdcomics.com/archive.php?1323

Getting a handle on data: version controlSVN example

Getting a handle on data: version controlSVN example

https://github.com/lh3

Getting a handle on data: version controlGitHub example

Getting a handle on data: version control

https://github.com/lh3/bwa

GitHub example

Data citing and sharingFigshare example

https://figshare.com/about

Data citing and sharingFigshare example

Data citing and sharingFigshare example

Data citing and sharingINSDC submission

GenBank

Data in a common formatData in a single location (and mirrored)Most quality checked prior to depositionRobust data tracking mechanism (accession.version)Data owned by submitter

What is next?

Talk to colleagues about their best practicesSolutions may exist in your institution

Learn to programSoftware carpentry (http://software-carpentry.org)Codecademy (http://www.codecademy.com)

Watch this videohttp://www.youtube.com/watch?v=N2zK3sAtr-4