migoox / genome-downsampler

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Raport #81

Closed migoox closed 3 months ago

migoox commented 3 months ago

1. Vision of What This Should Be

2. Theory

3. What We Did (Implementation)

  1. Solution using flow network
    • Theoretical description of the solution -- Michał
    • Proof that circulation always covers -- Michał
    • Possible proof that minimum circulation is the optimal solution -- Michał
    • Which algorithms were used -- Borys/Michał
  2. Linear programming
    • Theoretical description of the solution (reduction to canonical form) -- Michał
    • Which algorithms and libraries were used -- Borys

4. Experiment Results

  1. Flow network
    • Graphs showing coverage -- Marek
    • Comparison of max flow CUDA vs CPU (time) -- Marek
    • Comparison of min cost max flow with max flow (coverage) -- Marek
  2. Linear programming
    • Memory usage cuSPARSE, limitations -- Borys
    • Coverage results (graphs) -- Borys
    • Use of interesting weights -- Borys

5. Conclusions and Future Remarks