Shouldn't 1/4+1/4-1/16 = 0.4375 ?
…read more, vote or answerShouldn't 1/4+1/4-1/16 = 0.4375 ?
…read more, vote or answerIn repeat CG region, if k=5, s=2, then the smallest smer would never be at the start or end of kmer, could this secnario be the counter-example for window guarantee of circular closed syncmer? Or the CG-island should be special scenario?
…read more, vote or answerThe main text shows "Compare the second panel in row (A) with the second panel in row (G), which show that minimizers with w = 8 have compression 4.5 and conservation 0.47, while open syncmers with s = 3 and offset t = 2 have the same conservation with substantially better compression (5.9),". But in Figure 2, row (G) is not the offset open syncmers. Should it be the second panel in row S (panel T...
…read more, vote or answerThe open syncmers in the main text and caption of Table 4 are all s=31, but there is no s=31 in Table 4. Should it be s=21 in the main text and table caption?
…read more, vote or answerShould the note of this table is: "Id short identifier used in Table 5" rather than "Table 3" ?
…read more, vote or answerWhat are the depth and spacing entries? Were there general trends across the parameter space that could advise which parameter settings to look at?
…read more, vote or answerWhat are the "-"s in the t column? I thought they were no offset, but isn't that t=1?
…read more, vote or answerI may be misunderstanding the w parameter here or the minimap/kraken papers, but I thought Kraken was k=16,w=16 and minimap was k=15,w=5?
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