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Abyss

TODO LIST

- Get data for input i.e some 1000 k-mer with known genome.
- Understand and find code for assembling DNA from de-bruijin graph.
- Map k-mer to memory and build de-bruijin graph on GPU.
- Get DNA sequence using graph.

To genrate Reads

  • to set K, change the #define in GenDataFasta.cpp
  • compile g++ GenDataFasta.cpp -std=c++11
  • Run: ./a.out < inputfile >ouputfile