Raven is more relaxed in creating overlaps between contigs than unicycler and Flye in my experience if those dont work. Remember to manuel inspect the ends for hints to why they dont resolve into a single contig.

SBX circumvents the need to be able to read the pure/raw DNA but ONT have made major improvements in this area so it would a great addition i knowledge and include methylation possibilities in the future.

We are using it for cell free DNA that normally is below 1 ng/ul. ONT has a protocol online.

Love this real-time journal club thread!

The Marzi Lab in epigenetics band t-shirts

📢 Our lab is looking for a bioinformatics postdoc. We have lots of exciting projects to work on, including single cell (epi-)genomics, microglia xenotransplantations and nanopore long reads splicing analysis. Look out for the official advert next week and get in touch in the meantime 🧬🧠

Cool t-shirt game 🔥

Always nice when people share their optimizations. Eventhough the majority are implemented in the cell-free DNA protocol. Figure 1.E with the sequencing pores does not look good for the method, big drop in a short time. It would be nice to see it over longer time, eg. 24 hours.