Dada2 filtering out >80% of reads as chimeras!


(Sam Prudence ) #21

I don’t remember seeing a table or anything, but it appeared to run to completion (no error messages etc) and it took a few hours to complete, other than that I am not entirely sure… sorry! (it was a while ago and I am afraid I did not save it!)


(Matthew Ryan Dillon) #22

The output (when run with --verbose) is quite lengthy from this plugin — maybe you could re-run the command and take a peek?


(Sam Prudence ) #23

Hi Ryan,

No problem I will when I get a chance (I’m currently progressing with annotating the forward reads, attempting to train a classifier using the SILVA database, which is proving challenging! I’ll report back after this is done)

Thanks again for all the help