I'm exploring a low-power edge device that detects pathogens / microbial variability in the field directly from nanopore raw signals (no basecalling). It would give very fast results using low power vs current GPU solutions.

I'm trying to get a reality check from practitioners.

Is sequencing itself still a bottleneck? Or has throughput/cost shifted the bottleneck to sample prep or library prep?

Would real-time detection (sub-second latency) provide clinical value beyond what batch basecalling + mapping gives?

What's the hardest part of your current workflow – sample prep, sequencing time, compute/analysis, or interpretation?