Home Software Services About Contact usearch manual

  Getting started
  What's new in v9.2, new in v9, new in v8, new in v7
  Command line
  Intro for users of blast, cd-hit, qiime, mothur
  Tutorials and lecture slides
  Papers and citing USEARCH

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

Marker gene metagenomics (16S, ITS...)
OTU analysis (UPARSE pipeline)
  High-resolution analysis (UNOISE pipeline)
  Taxonomy prediction (UTAX and SINTAX)
  Data analysis service

  Technical support
Bugs and fixes
Version 9
  Version 8
  Version 7

Old manuals

  Version 9.0
  Version 8.1
  Version 8.0
  Version 7
  Version 6


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

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

19-Nov-2016 USEARCH v9.1 posted. See what's new.

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

16-Oct-2016 UNOISE paper posted.

14-Sep-2016 UCHIME2 and SINTAX papers posted.