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cs.DS2018
Parallel approach to sliding window sums
Roman Snytsar, Yatish Turakhia
Sliding window sums are widely used in bioinformatics applications, including sequence assembly, k-mer generation, hashing and compression. New vector algorithms which utilize the…
cs.DS2018★ 1 cited
Vectorized Character Counting for Faster Pattern Matching
Roman Snytsar
Many modern sequence alignment tools implement fast string matching using the space efficient data structure called FM-index. The succinct nature of this data structure presents un…