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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.



Size annotations

See also
  fastx_strip_annots command

Size annotations are used to indicate cluster sizes of representative sequences.

A size annotation is specified as a size=N field in the sequence label. It may appear anywhere in the label. It must be delimited by semi-colons, which may optionally be omitted at the end of a label, though this is not recommended.

You can propagate size annotations through multiple commands by using the -sizein and -sizeout options, which are supported by most (but not all) clustering commands.