Video talks on 16S data analysis posted.

URMAP ultra-fast read mapper posted (paper).

~20% of taxonomy annotations in SILVA and Greengenes are wrong (paper).

Taxonomy prediction is <50% accurate for 16S V4 sequences (paper).

97% OTU threshold is wrong for species, should be 99% for full-length 16S, 100% V4 (paper).

-orfstyle

The orfstyle and mincodons options control how ORFs are identified by USEARCH. These options are used by the findorfs command and by translated searches.

The value of orfstyle is an integer obtained by adding the numbers from the table below. The default value of orfstyle is 5.

Value		Description
1		Allow an ORF to start at the beginning of the nucleotide sequence (otherwise, must begin with a START codon).
2		Allow an ORF to start immediately following a STOP codon (otherwise, must begin with a START codon). This compensates for read errors that might corrupt a START codon sequence, and allows non-standard START codons.
4		Allow an ORF to end at the end of the nucleotide sequence (otherwise, must be terminated by a STOP codon).
8		Include the STOP codon, if any, in the translated sequence. This is useful in the findorfs command to distinguish ORFs that contain a STOP from those that are terminated by the end of the nucleotide sequence. The STOP codon is represented by an asterisk (*). Do not use for translated searches.