ABySS¶

Description¶

ABySS is a de novo sequence assembler intended for short paired-end reads and large genomes.

Environment Modules¶

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

Environment Variables¶

Additional Usage Information¶

The abyss-pe binary is hardcoded for mpiexec use, so you need to set the following variable in your abyss job script before calling abyss-pe to explicitly allow mpiexec usage, which is disabled by default:

export HPC_USE_MPIEXEC=1

as the normal srun --mpi=.. approach will not work.

Categories¶

biology, de_novo