ssr_pipeline¶

Description¶

SSR_pipeline is a flexible set of programs designed to efficiently identify simple sequence repeats (SSRs; for example, microsatellites) from paired-end high-throughput Illumina DNA sequencing data. The program suite contains three analysis modules along with a fourth control module that can be used to automate analyses of large volumes of data.

Environment Modules¶

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

Environment Variables¶

HPC_SSR_PIPELINE_DIR - installation directory
HPC_SSR_PIPELINE_BIN - executable directory

Citation¶

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

Miller, M. P., Knaus, B. J., Mullins, T. D., & Haig, S. M. (2013). SSR_pipeline: a bioinformatic infrastructure for identifying microsatellites from paired-end Illumina high-throughput DNA sequencing data. The Journal of heredity, 104(6), 881–885. https://doi.org/10.1093/jhered/est056ß

Categories¶

biology, sequencing