This has been reposted from our lab tumblelog
Files from the core facility are downloaded locally to my computer; “NGS Drive”.
This drive is backuped in multiple places including
Documentation via IPython Notebook
I have been using for a few months and just started hosting on Github https://github.com/sr320/ipython_nb. IPython is great for so many reasons.
GitHub is nice given the iterative nature of going back to a notebook, thus having version control?
Here is a recent entry acessible via http://nbviewer.ipython.org/
A screencast from early on
Most of the “secondary” analysis (which I consider playing with large text files) I try to do within my IPython Notebook or SQLShare. I put BLAST in this category and this is accomplished locally on 16 core machine (hummingbird) for big jobs or 4 core machine (greenbird) for light jobs. See example above for how I try to go from IPython to SQLShare.
These files are housed on a Synology NAS. My folder is public here. This is where I write and read working files to and from.
After the secondary analysis, pretty pictures need to be made. Some examples of how this might be done…
A few things I can’t do without (besides whats listed above)
- Clipboard History http://www.agileroute.com/clipboardhistory/
- Skitch http://evernote.com/skitch/
- SnagPath https://www.macupdate.com/app/mac/13623/pathsnagger
via the Lab Tumblr: http://genefish.tumblr.com/post/56440034816