BIOINFORMATICS SEMI GLOBAL ALGORITHMS

There are two algorithms: An Improved Semi Global Alignment and Boyer Moore Algorithms. The two algorithms are Bioinformatics string matching algorithms that matches the pattern P with the text T . For the Semi Global Alignment algorithm, the pattern and text are matched/aligned to check the percentage of similarity, the percentage of false positive and the percentage of false negative. It uses dynamic programming technique us matrices. Gap penalties/ score for both pattern and text are introduced and also match and mismatch score. Schonlau dataset was used to check the performance of the algorithm. The Semi Global alignment will be tweaked/ manipulated to give better performance hit rate more than 88 % compared to 82.1% stated in Also, the boyer Moore Algorithm is a linear algorithm. I want to introduce gap penalties for both pattern and Text and also match and mismatch score to improve the boyer moore algorithm. I will prefer java programming language for the implementation of the algorithm. 1. Java is required 2. Many publishers used C++ and Java 3. It will be implemented on the laptop 4. The algorithms are embedded in the attached journal sent to you. Additional can be found here [login to view URL] interface will be designed for the input text and pattern and output to physically reflect result performance and the graph 6. The results will be stored on the file/database on the laptop 7. The hit rate will be over 88% and the false positive rate will be below 5% 8. Also, there is dataset called Schonlau dataset found on ([login to view URL]) that is used as benchmark to check the performance of the algorithms separately. The result will give - false positive - false negative -hit rate 9. The interface shown in the document (An improvement on semi global alignment algorithm) will guide you. -Figure demonstration of peak point Alignment score - Figure 2 Cross semi global alignment evaluation interface - figure 3 Cross semi global intrusion Gaps computation 10. The schonlau dataset can be found on ( [login to view URL] ) 11. The interface shown in the document (An improvement on semi global alignment algorithm) will guide you. -Figure demonstration of peak point Alignment score - Figure 2 Cross semi global alignment evaluation interface - figure 3 Cross semi global intrusion Gaps computation SUMMARY 1. The project to be delivered will contain these : 2. 1. An improved cross semi global alignment algorithm with hit rate above 88 % 3. 2. An improved Boyer moore algorithm with hit rate above 88 % 4. 3. The false positive for both algorithms will be below 5 % 5. 4. Java language will be used 6. The formular for hit rate, false positive, false negative is found in the metric [login to view URL] sent to you 7. 7. The results and the interface will look like the one found in the metric document 8. 8. Program will be written for each algorithm separately 9. 9. Schonlau dataset will be used to check the performance of the algorithms after they have been implemented How long will it take you to deliver the project and how much will it cost me. Thanks as I await your swift response.