VSearch¶

Description¶

VSEARCH supports de novo and reference based chimera detection, clustering, full-length and prefix dereplication, reverse complementation, masking, all-vs-all pairwise global alignment, exact and global alignment searching, shuffling, subsampling and sorting. It also supports FASTQ file analysis, filtering and conversion.

Environment Modules¶

Run module spider vsearch to find out what environment modules are available for this application.

Environment Variables¶

HPC_VSEARCH_DIR - installation directory
HPC_VSEARCH_BIN - executable directory

Citation¶

If you publish research that uses vsearch you have to cite it as follows:

Rognes, T., Flouri, T., Nichols, B., Quince, C., & Mahé, F. (2016). VSEARCH: a versatile open source tool for metagenomics. PeerJ, 4, e2584. https://doi.org/10.7717/peerj.2584

Categories¶

biology, ngs