Small test dataset for testing Vargas
Scaling Experiments (Section 3.1)
Generating graphs and read sets to test thread scaling on Knights Landing and Skylake architectures with SSE4.1, AVX2, and AVX512BW instruction sets
Heuristic Experiments (Section 3.2-3.3)
Aligning reads with the scoring function of popular aligners to evaluate alignment correctness and mapping quality
Optimization Experiments (Section 4)
Optimizing Bowtie 2 parameters for aligning a dataset of ChIP-seq reads.