SPAdes¶

Description¶

SPAdes – St. Petersburg genome assembler – is intended for both standard isolates and single-cell MDA bacteria assemblies.

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

Please see the Spades Website for more detailed documentation.

You can create a personal phyluce config in ~/.phyluce.conf. It's mostly used to set trinity or spades memory with something like

[trinity]
max_memory:8G
kmer_coverage:2

[spades]
max_memory:6G
cov_cutoff:5

biology, ngs