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r1264: added --jump-min-match, default to 3

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To match STAR
This commit is contained in:
Heng Li
2025-04-06 23:18:55 -04:00
parent af094640e5
commit fbb9c0fcba
5 changed files with 13 additions and 6 deletions
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minimap2.1
+6 -1
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@@ -1,4 +1,4 @@
.TH minimap2 1 "6 April 2025" "minimap2-2.28-dirty (r1259)" "Bioinformatics tools"
.TH minimap2 1 "6 April 2025" "minimap2-2.28-dirty (r1264)" "Bioinformatics tools"
.SH NAME
.PP
minimap2 - mapping and alignment between collections of DNA sequences
@@ -466,6 +466,11 @@ Score bonus for a splice donor or acceptor found in annotation [9]. Effective wi
but not
.BR --spsc .
.TP
.BR --jump-min-match \ INT
Minimum matching length to create a jump [3]. Equivalent to
.B STAR
.BR --alignSJDBoverhangMin .
.TP
.BI --end-seed-pen \ INT
Drop a terminal anchor if
.IR s <log( g )+ INT ,