new make.contigs

Commands in mothur
1

Hello!

Thank you very much for the uptade!

My question is quite simple: what is the difference, for a given run, using the “old” make.contigs compared to the new way errors are being calculated? Does that significantly impact results?

Probably alpha diversity metrics will change and it may affect also relative abundance analysis at higher taxonomic levels (OTU agglomeration et genus for exemple).

2

Hmmm… not sure I know what you mean - make.contigs hasn’t really changed the output fasta sequence data since the Kozich paper was published.

Pat

3

Sorry, I guess my question was not clear enough.

Will the adjustment in the recent patch on the way the quality scores are computed for make.contigs will change something on the downstream analysis?

4

Oh - not at this time.