Pipeline example: minimal, paired
OTU / denoising
This example shows the minimum commands you
need to get from overlapping paired reads to OTUs and denoised (ZOTU) sequences. In practice,
you'll probably need to do more read
preparation. There are 4,259 reads of a mock community which generate
~21 OTUs and ~22 ZOTUs. You need to set the
environment variable $usearch to the name (or path) for your
usearch binary file.
Download commands and data
Reads: right-click on
and click Save As. Use tar -zxvf ex_min2_reads.tar.gz to extract.
Bash script: select all text below (ctrl+A) and
copy/paste into a text editor, or right-click on ex_min2.bash and click Save As.