The TMAP mapvsw module implements a vectorized implementation of Smith-Waterman.
The mapvsw module is not the default for TMAP, map4 is the default.
The following options are supported with the TMAP mapvsw module (all are optional)
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Option
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Type
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Default
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Description
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--min-seq-length
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Integer
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-1
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The minimum sequence length to examine.
-1 to disable
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--max-seq-length
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Integer
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-1
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The maximum sequence length to examine.
-1 to disable
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