~20% of taxonomy annotations in SILVA and Greengenes are wrong (paper).
Taxonomy prediction is <50% accurate for 16S V4 sequences (paper).
97% OTU threshold
is wrong for species, should be 99% for full-length 16S, 100% V4 (paper).
Open-source USEARCH
I would like to convert USEARCH to open-source. The challenges are to find funding and/or
credible volunteers to support further development and maintenance. If you have any ideas or
would like to contribute, please contact me.
USEARCH has been cited by
20,682
papers
Google scholar
Last updated
19 May 2024
64-bit users
Joint Genome Institute
MBL, Woods Hole
Cornell Univ.
CNRS (France)
La Jolla Institute
Ag. Research (NZ)
Broad Institute
Nestle
LANL
UC Davis
UC Berkeley
NCBI
NIH
Monsanto
Caltech
Pacific Biosystems and many more.
High-throughput search and clustering USEARCH is a unique sequence analysis tool with
thousands of users world-wide. USEARCH offers search and clustering
algorithms that are often orders of magnitude faster than BLAST.
Improved productivity and insights USEARCH combines many different algorithms into
a single package with outstanding documentation and support. This cuts
your learning curve, reduces the number of steps you need to take for
a given task, and slashes compute times. USEARCH will encourage you to
explore your data, enabling new insights and suggesting new analyses
that you might not have tried with slower tools.
Free for most users Licenses to use 32-bit USEARCH are offered at
no charge for all users, including commercial.
You can download the
32-bit version here.