trim seqs







Once thats done will run QC report prior to Assembly.





Redo with changing limit to 20


baffled with the filter on Length - 



---
Not going to trim on length - 
trim v4


QC report

PRE trim report for CC
Roberts_20100712_CC_F3 - graphical QC report.pdf


Post trim report CC and CE
Roberts_20100712_CC_F3 trimmed - graphical QC report.pdf




De novo assembly (v4)





Roberts_20100712_CC_F3 trimmed assembly summary report_1.pdf






look at trim reads with 20bp cut-off; (trim v3)

v3 trimmed reads
http://eagle.fish.washington.edu/cnidarian/BlackAB_20100712_CC_CE_v3_trimmed.fastq

bringing into iPlant


also do an assembly using this data
fast assembly

100bp min
@ 200 -> 1700 sequences



-- did slow assembly



Roberts_20100712_CC_F3 trimmed assembly summary report.pdf



Experiment
CC vs. CE.xlsx