I would like to know more about long read sequencing like Nanopore or PacBio does. Getting the basic biochemistry behind the idea and the current problems (higher error rate i.e due to homopolymers) was not a big issue, but processing and making actual use of the data (in a bioinformatical sense) is not too easy, lets say. Does anyone of you have experience with these sequencing technologies? What sequencing depth with long reads (5kb and more), for instance, would you suggest to detect SNVs, INDELS and CNVs for whole exome or genome? Can we trust the new methods Nanopore claims to have to reduce sequencing error close to 1% (Hidden Markov Fields)? What about methylation? I would really appreciate some feedback or literature suggestions (appart from the papers Nanopore presents).
Thanks guys and have a nice day,