Miniasm¶

Description¶

Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly graph in the GFA format. Different from mainstream assemblers, miniasm does not have a consensus step. It simply concatenates pieces of read sequences to generate the final unitig sequences. Thus, the per-base error rate is similar to the raw input reads.

Environment Modules¶

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

Environment Variables¶

HPC_MINIASM_DIR - installation directory
HPC_MINIASM_BIN - executable directory

Categories¶

biology, phylogenetics