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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.

24-Nov-2016
UPARSE tutorial video posted on YouTube. Make OTUs from MiSeq reads.

 

USEARCH v11
 New in v11 

fastx_syncpairs command

 
The fastx_syncpairs command sorts paired reads so that the reads appear in the same order in both files. If a read label appears in one file and not the other, it is discarded. The input files can be in FASTA or FASTQ format.

Example

usearch -fastx_syncpairs fwd.fq -reverse rev.fq -output1 fwd_sorted.fq -output2 rev_sorted.fq