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r1149: implemented random open syncmer
On the mm2-update dataset, -j8 leads to sparser k-mer selection at higher accuracy. The speed becomes a little slower. There seems a benefit but not a big one.
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+13
@@ -79,6 +79,19 @@ Minimizer k-mer length [15]
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.BI -w \ INT
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Minimizer window size [10]. A minimizer is the smallest k-mer
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in a window of w consecutive k-mers.
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.TP
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.BI -j \ INT
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Syncmer submer size [10]. Option
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.B -j
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and
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.B -w
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will override each: if
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.B -w
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is applied after
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.BR -j ,
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.B -j
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will have no effect, and vice versa.
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.TP
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.B -H
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Use homopolymer-compressed (HPC) minimizers. An HPC sequence is constructed by
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