The exponential growth in molecular sequence data started in the early 1980s when methods for DNA sequencing became widely available. The data were accumulated in databases such as GenBank, EMBL ...
GKMKernel family — gapped k-mer kernels from gkmSVM / LS-GKM (Ghandi et al. 2014; Lee 2016). C-backed, OpenMP-parallel, with full/estimated/truncated mismatch schemes, 6 post-transforms (RBF, poly, ...
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The Smith–Waterman algorithm was used for all pairwise comparisons among sequences, which is more accurate than the default. The alignments were iteratively refined up to 1,000 times and sequences in ...
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