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11-Apr-2017 UNBIAS paper: 16S read abundance does not correlate with species abundance!

11-Apr-2017 Search_16S paper: new method for finding 16S genes in chromosomes and contigs.

28-Dec-2016 USEARCH v9.2 posted. What's new.

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

19-Nov-2016 UNCROSS paper posted. 2% of Illumina reads are assigned to wrong sample!
 

 
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OTUs and denoising
 
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Getting started
   What's new in v10
  Installation
  Command line
  Tutorials and lecture slides
  Papers and citing USEARCH

 Commands
   All commands
  Algorithms
  Commands by category
      search, clustering, fasta/q files
      trees & distance matrices
      OTU commands
  Command-line options

Support
   Technical support
  Known bugs
 

 
Marker gene metagenomics (16S, ITS...)
  OTU / denoising analysis
  Quality control for OTUs
  Example scripts with test data
  Diversity and taxonomy analysis
  OTU tables

Topics in sequence analysis
  OTU analysis, clustering methods,
  taxonomy, diversity analysis,
  next-gen reads

Old manuals 
  Version 9.2
  Version 8.1
  Version 7
  Version 6