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explained --junc-bed in README
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@@ -391,7 +391,7 @@ BED12 file can be converted from GTF/GFF3 with `paftools.js gff2bed anno.gtf'
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.BR --junc-bonus \ INT
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Score bonus for a splice donor or acceptor found in annotation (effective with
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.BR --junc-bed )
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[0].
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[9].
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.TP
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.BI --end-seed-pen \ INT
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Drop a terminal anchor if
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