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).

otutab_sample_subset command

See also
OTU commands
OTU table
Making an OTU table (otutab command)

Extract a subset of samples from an OTU table. Input must be in QIIME classic format. The -output option gives a filename for the result.

The -labels option gives the name of a text file containing the sample identifiers. This is a text file with one sample identifier per line.

All OTUs are retained in the output table even when the total count for an OTU is zero. To delete OTUs with zero count, use the otutab_trim command.

Example

usearch -otutab_sample_subset otutable.txt -labels sample_ids.txt -output subset.txt