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11-Aug-2018 New paper describes octave plots for visualizing alpha diversity.

12-Jun-2018 New paper shows that one in five taxonomy annotations in SILVA and Greengenes are wrong.

18-Apr-2018 New paper shows that taxonomy prediction accuracy is <50% for V4 sequences.

05-Oct-2017 PeerJ paper shows low accuracy of closed- and open-ref. QIIME OTUs.

22-Sep-2017 New paper shows 97% threshold is wrong, OTUs should be 99% full-length 16S, 100% for V4.

UPARSE tutorial video posted on YouTube. Make OTUs from MiSeq reads.


 New in v11 

otutab_binary command

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

Convert OTU table from counts to presence (0) / absence (1) values.

Note -- this command is not usually recommended because presence / absence cannot be reliably measured with amplicon sequencing due to cross-talk.

The input file must be in QIIME classic format.

The output file is specified by the -output option.


usearch -otutab_binary otutab.txt -output otutab_bin.txt