Optimise spot detection

paulshuker / coppafish

COmbinatorial Padlock-Probe-Amplified Fluorescence In Situ Hybridization

https://paulshuker.github.io/coppafish/

MIT License

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Open paulshuker opened 3 weeks ago

paulshuker commented 3 weeks ago

This code is used in both find spots and OMP for spot detection. It is pretty slow due to a for loop and needs to be considered for optimisation.
For find spots, it takes about 30 minutes for a 2304x2304x64 tile in 7 rounds, 9 channels.