Has anyone encountered Bionano's Saphyr system yet for structural variant identification or genome assembly? If so, would you be open to sharing your experience?
Saphyr system does work pretty well for the purposes of identifying structural variants that are much longer range. How well it will work for your organism will depend on the genome you are working with and the quality of the bionano data you get. It can be really tricky to get very large molecular weight DNA which is essential for success of a bionano run. It will require optimization (they have protocols to help) for your cells/system. Well characterized genomes like human/mouse are easier to work with since bionano software already has these built in.
Bionano can provide much longer range structural variants that no sequencing can method can detect. example Paper.
You have no doubt seen some of the success stories they present on their website regarding the two specific applications you are interested in.
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