SPAdes – St. Petersburg genome assembler – is intended for both standard isolates and single-cell MDA bacteria assemblies.
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
- Validated 4/5/2018