C2G2 06-21-2013 MUSC

Agenda

 * 1) Quick status updates on blogs (i.e., what has everyone been working on this week)
 * 2) Update from Connor about FLi1 v PDEF, including heatmaps breaking the genes up into different groups based on a 1.5 fold change.
 * 3) Flexibility issues with CummeRbund.
 * 4) DESeq v Cufflinks (http://seqanswers.com/forums/showthread.php?t=17678)
 * 5) What are the GSEA-like techniques that we would like to try?
 * 6) What are the pathway tools that we would like to try?
 * 7) Find a way to group clusters together
 * 8) Add more colors
 * 9) Highlight scatter plot with pathway information
 * 10) Pick a specific pathway and then look at hairballs
 * 11) Add lung cancer dataset which has replicates
 * 12) Volcano plots
 * 13) Trans-abyss status (Matt)
 * 14) Adding new adapters to trimmomatic (Matt)
 * 15) Nightly Database backup (Matt)
 * 16) Methodology papers with DESeq and Cufflinks and Trans-abyss/Trinity
 * 17) Options for Trinity
 * 18) Bioanalyzer
 * 19) Satomi's alligator annotation problems. Scripting.