24 January 2014


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Thursday - Friday notes


  • Lab safety training


Preliminary finished analysis

Odd pattern that of 1,870 transcripts with significant responsive expression, 98% shared among colonies. Double-checking all code to see if this can be correct.

  • Lab safety training
  • Helms-Cahan lab
  • Steve Keller seminar in Plant Biology



Trying to figure out why each colony has such similar expression patterns…could this really be true?

In debugging script, found major error where sailfish quantification mis-matched levels. Though a problem, this shouldn’t change the shared pattern among colonies, just which transcripts show significant responsiveness.

Also trying to speed up RxN analysis by using plyr instead of a for loop. Steep learning curve.


  • cross-check results with RSEM

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