Very nice setup, thanks for sharing Nick. It’s really great to see the MinION performing so well in the field producing realtime data! Just one quick comment on this part:
I totally understand you’re limited by the technology, but we actually see quite a few - and potentially interesting - indels cropping up in the EBOV genome during the outbreak. We know about the indels in the GP causing framshifts, but we observe quite a few similar indel ‘hotspots’ scattered around the genome in poly-A tracts. Not sure what the biological significance is, but could be interesting and important to monitor. We also see some a few classical indels causing framshifts - presumably these are ‘passenger’ viruses hitching a ride with in-frame viruses. Do you know if there would be any way you could correct your data to capture these? E.g. strand-bias filters, etc?