shovill¶

Description¶

Shovill is a pipeline which uses SPAdes at its core, but alters the steps before and after the primary assembly step to get similar results in less time. Shovill also supports other assemblers like SKESA, Velvet and Megahit, so you can take advantage of the pre- and post-processing the Shovill provides with those too. Shovill is for isolate data only, primarily small haploid organisms. It will NOT work on metagenomes or larger genomes.

Environment Modules¶

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

Environment Variables¶

HPC_SHOVILL_DIR - installation directory
HPC_SHOVILL_BIN - executable directory

Categories¶

genomics, sequencing, biology