Low correlation between read abundance and species abundance
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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

Low correlation between read abundance and species abundance

See also
 
Defining and interpreting OTUs
  Interpreting counts in OTU tables
 
Abundance bias
  UNBIAS paper
  unbias command

Image

Species frequencies determined by shotgun sequencing (top-left) and 16S read frequencies (bottom-left). The Pearson correlation between the freqency distributions is 0.17 (right). Figure from UNBIAS paper.