Maybe add vsearch merge wrapper to AssemblePairs
Issue #68
new
vsearch has the --fastq_mergepairs
command from usearch. Might be worth adding a wrapper for it to AssemblePairs, as it’s considerably faster. I tested usearch’s assembly a long time ago and it performed pretty well. We can’t do reference guided assembly or annotation copying, but for simple protocols where mate-pair assembly is the first step, it might be appropriate.