Team Challenger

Team Members

• Xinying Wang
• Qilin Li
• Zhong Hu

References

• IDBA - A Practical Iterative de Bruijn Graph De Novo Assembler

Wiki Contributions

• Xinying Wang

• week 1

• Convey vector personalities offer OpenMP-like programming approach with FPGA accelerating. [1]
• Weekly presentation slides Media:week1slides.pptx

• week 2

• A Sparse Matrix Personality for the Convey HC-1 [2]

• week 3

• Translate verilog version adder file to vhdl code.
• Discuss the implementation of QR application on convey system
• Cordic Algorithm Implementations on FPGA [3]

• week 4

• Convey computing with bioinformatics applications [4]

• week 5

• Tutorial for COREGEN [5]

• week 6

• GPU-Euler: Sequence Assembly using GPGPU[6]

• week 7

• Genome assembly [7]

• Qilin Li

• week 1

• Introduction to Compilers for Convey [8]
• GPGPU Programming on example of CUDA [9]
• Parallel Programming in CUDA C [10]

• week 2

• A Simple Makefile Tutorial

• week 3

• A Simple VIM Tutorial

• week 4

• Convey System Administration Guide

• Zhong Hu

• CUDA Global Memory Usage & Strategy. [11]
• CUDA C++ code samples.[12]

• make-up for week 2

• QR ecomposition on GPUs[13]
• Introduction to Householder algorithm in QR decomposition application[14]

• make-up for week 3

• CUDA Memory Model[15]
• CUBLAS Library Usage Reference[16]

• week 4

• system Verilog tutorial[17]

• week 5

• most commonly used CUDA wiki website[18]
• Nvidia GPU versions and corresponding compute capability[19]
• methods to check CUDA memory constraints in terms of different GPU versions[20]

• week 6

• open source software lists for genome alignment and assembly[21].