Projects
580 projects this semester will focus on tools for spliced alignment / alignment of short read data. Each student should choose one of the following programs to look at:
- Palma and Qpalma (Alex)
- The tophat / bowtie suite of programs (Kate)
- SSAHA2 (Nissa)
- BLAT (Michael)
- Exonerate (Alan)
- Pass (Zach)
- Gmap
Talk to the instructor to choose a program. You will apply the program to simulated short-read data that we will provide. Your final report will describe your experience with the program in comparison to some of the other programs. You will give a presentation during the last week of classes and submit a final report describing your analysis.
