View Single Post
Old 04-14-2017, 05:01 PM   #4
Senior Member
Location: US

Join Date: Dec 2010
Posts: 355

Trinity is the standard for de novo transcriptome assemblies. Thus also the artifacts it produces are relatively wellk nown.
Sorry, I have never used CLC for this purpose. I would suggest to contact CLC for suggested settings for transcriptomes (I can't imagine the defaults are optimal).
For genome assemblies CLC has the advantage that it will work with all kinds of data (all kinds of read lengths, paired or not paired, and even low quality data). In short it is extremely robust for this purpose.
luc is offline   Reply With Quote