CONCLUSION- Take home message -<br />Matrix       Gap opening       Gap extension <br />Dynamic Programming      Needle   ...
Conclusion<br />Pair wise Sequencing Alignment<br />
Conclusion<br />Pair wise Sequencing Alignment<br />???<br />???<br />INPUT<br />
Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Gl...
Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Gl...
Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Gl...
Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Gl...
 Types of software</li></ul>WATER<br />NEEDLE<br />- Parameters- <br />
Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Gl...
 Types of software</li></ul>WATER<br />NEEDLE<br />- Parameters- <br />E-DNA or BLOSUM or PAM <br />E-DNA or BLOSUM or PAM...
 Types of software</li></ul>WATER<br />NEEDLE<br />- Parameters- <br />E-DNA or BLOSUM or PAM <br />E-DNA or BLOSUM or PAM...
 Types of software
 Types of Matrix
 GAP Penalties</li></li></ul><li>Conclusion<br />Essence of Dynamic Programming <br />INPUT<br /><ul><li> Types of Algorithm
 Types of software
 Types of Matrix
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PSA [Conclusion]

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LSM2241 - Pairwise Sequencing Alignment Presentation's Conclusion

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PSA [Conclusion]

  1. 1. CONCLUSION- Take home message -<br />Matrix Gap opening Gap extension <br />Dynamic Programming Needle Water<br />Local alignment Global alignment<br />Similarity Identity<br />
  2. 2. Conclusion<br />Pair wise Sequencing Alignment<br />
  3. 3. Conclusion<br />Pair wise Sequencing Alignment<br />???<br />???<br />INPUT<br />
  4. 4. Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />
  5. 5. Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />
  6. 6. Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />Local<br />Global<br />Process<br />
  7. 7. Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />Local<br />Global<br />Process<br />Smith-Waterman algorithm<br />Needleman-Wunsch algorithm<br /><ul><li> Types of Algorithm</li></li></ul><li>Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />Local<br />Global<br />Process<br />Smith-Waterman algorithm<br />Needleman-Wunsch algorithm<br /><ul><li> Types of Algorithm
  8. 8. Types of software</li></ul>WATER<br />NEEDLE<br />- Parameters- <br />
  9. 9. Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />Local<br />Global<br />Process<br />Smith-Waterman algorithm<br />Needleman-Wunsch algorithm<br /><ul><li> Types of Algorithm
  10. 10. Types of software</li></ul>WATER<br />NEEDLE<br />- Parameters- <br />E-DNA or BLOSUM or PAM <br />E-DNA or BLOSUM or PAM<br /><ul><li> Types of Matrix</li></li></ul><li>Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />Local<br />Global<br />Process<br />Smith-Waterman algorithm<br />Needleman-Wunsch algorithm<br /><ul><li> Types of Algorithm
  11. 11. Types of software</li></ul>WATER<br />NEEDLE<br />- Parameters- <br />E-DNA or BLOSUM or PAM <br />E-DNA or BLOSUM or PAM<br /><ul><li> Types of Matrix</li></ul>Default: Opening G – 10 Extension G – 0.5<br />Note: These settings can be customized accordingly!!!<br /><ul><li> GAP Penalties </li></li></ul><li>Conclusion<br />INPUT<br /><ul><li> Types of Algorithm
  12. 12. Types of software
  13. 13. Types of Matrix
  14. 14. GAP Penalties</li></li></ul><li>Conclusion<br />Essence of Dynamic Programming <br />INPUT<br /><ul><li> Types of Algorithm
  15. 15. Types of software
  16. 16. Types of Matrix
  17. 17. GAP Penalties</li></li></ul><li>Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />PROCESS<br />Outcome 1<br />OUTPUT<br />
  18. 18. Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />PROCESS<br />Outcome 1<br />Outcome 2<br />OUTPUT<br />
  19. 19. Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />PROCESS<br />Outcome 1<br />Outcome 2<br />Outcome 3<br />OUTPUT<br />
  20. 20. Conclusion<br />Pair wise Sequencing Alignment<br />DNA<br />Protein<br />INPUT<br />Types of Alignment<br />Local<br />Global<br />Local<br />Global<br />PROCESS<br />Outcome 1<br />Outcome 2<br />Outcome 3<br />Outcome 4<br />OUTPUT<br />Note: Do look out for Sequence Identity (%) , Similarity (%) and alignment of your input sequences<br />
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