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document --secondary-seq in manpage

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Resolve #1122
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Heng Li
2023-10-24 09:52:39 -04:00
parent ace990c381
commit 98a3aa1b39
1 changed files with 3 additions and 0 deletions
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@@ -506,6 +506,9 @@ Output =/X CIGAR operators for sequence match/mismatch.
.B -Y .B -Y
In SAM output, use soft clipping for supplementary alignments. In SAM output, use soft clipping for supplementary alignments.
.TP .TP
.B --secondary-seq
In SAM output, show query sequences for secondary alignments.
.TP
.BI --seed \ INT .BI --seed \ INT
Integer seed for randomizing equally best hits. Minimap2 hashes Integer seed for randomizing equally best hits. Minimap2 hashes
.I INT .I INT