data management and accessibility deanna m. church staff scientist, ncbi @deannachurch short course...
TRANSCRIPT
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