Advances in error correction for next generation sequencing have not matched increases in data production and as a result, the quality of the generated nucleotide sequences has suffered. The purpose of this project was to develop a processing pipeline which would remove errors from intensity data for a faster and more accurate analysis. The method employed to achieve these goals was to redesign the algorithm used to correct for bleaching and phasing to capture a greater number of misidentified bases. Two pipelines were created, pipeline 1 (illumina) and pipeline 2 (Oracle ), it was determined that pipeline 2 out preformed pipeline one in terms of accuracy. But pipeline 1 was determined to be faster in processing time and thus the main question is asked do you sacrifice time for efficiency?

• This report represents the work of one or more WPI undergraduate students submitted to the faculty as evidence of completion of a degree requirement. WPI routinely publishes these reports on its website without editorial or peer review.

Creator

• Maung, Wai Phyo
• Erb, Jared Douglas
• Rebh, Alec W.
• Pepo, Maris N.

Contributors

• Miranda, Moly
• Rosenman, Jason

Publisher

• Worcester Polytechnic Institute

Identifier

• E-project-043014-172052

Advisor

• Flaherty, Patrick J.

Year

• 2014

Date created

• 2014-04-30

Resource type

• Major Qualifying Project

Major

• Biomedical Engineering

Rights statement

• In Copyright