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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 

tree_subset command

Extract a subset of a binary tree defined by a subset of labels in the tree. The output tree is the binary tree for those labels according to the branching order of the input tree.

Output is written to a tree in tabbed text format (tabbedout option) and/or Newick format (newickout option).


usearch -tree_subset big.tree -labels labels.txt -newickout subset.tree