Can anyone offer a suggestion for what my trim-left and trunc-f/r parameters should be based on this quality plot?
I’ve attempted to do @120 for both fwd/rev and @150 for both fwd/rev. Didn’t trim-left at all yet. I am running out of ideas and would like a new perspective for my next run.
If anyone has any suggestions and a tip for reading these plots to determine DADA2 parameters, it’d be much appreciated.
I am confused about how significant quality score drops are. Scores do drop from 37 consistently to whiskers at around 25 after a while but is that significant enough to truncate from there? Should I immediately truncate as soon as there is a drop, regardless of how significant/non-significant the drop is? That is the trend I’ve been observing in terms of suggestions – if the score drops, truncate.
Thank you so much!