otutab_counts2freqs command
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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.



otutab_counts2freqs command

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

Convert OTU table from counts to frequencies. The input file must be in QIIME classic format.

The output file is specified by the -output option.

The output file is formatted in a modified QIIME classic format where the values are floating-point frequencies in the range 0.0 to 1.0.

Note that most USEARCH commands do not support OTU tables with frequencies. You can convert from frequencies to counts by using the otutab_freqs2counts command.


usearch -otutab_counts2freqs otutable_counts.txt -output otutable_freqs.txt