seekdeep¶

Description¶

The SeekDeep pipeline is intended for use on targeted amplicon sequencing data for haplotype frequency estimation for multiple samples from a population.

Environment Modules¶

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

Environment Variables¶

HPC_SEEKDEEP_DIR - installation directory
HPC_SEEKDEEP_BIN - executable directory

Citation¶

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

Hathaway, Nicholas J., Christian M. Parobek, Jonathan J. Juliano, and Jeffrey A. Bailey. 2017. “SeekDeep: Single-Base Resolution de Novo Clustering for Amplicon Deep Sequencing.” Nucleic Acids Research, November. https://doi.org/10.1093/nar/gkx1201.<!-- END INCLUDE -->

Categories¶

biology, sequencing