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document --heap-sort

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Heng Li 2018-01-26 15:15:40 -05:00
parent d676a5314b
commit 6205fa6f21
1 changed files with 6 additions and 2 deletions
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@ -1,4 +1,4 @@
.TH minimap2 1 "16 January 2018" "minimap2-2.7-dirty (r655)" "Bioinformatics tools" .TH minimap2 1 "26 January 2018" "minimap2-2.7-dirty (r664)" "Bioinformatics tools"
.SH NAME .SH NAME
.PP .PP
minimap2 - mapping and alignment between collections of DNA sequences minimap2 - mapping and alignment between collections of DNA sequences
@ -219,6 +219,10 @@ strand of the reference and the second read to the reverse stand.
.TP .TP
.B --rev-only .B --rev-only
Only map to the reverse complement strand of the reference sequences. Only map to the reverse complement strand of the reference sequences.
.TP
.BR --heap-sort [= no | yes ]
If yes, sort anchors with heap merge, instead of radix sort. Heap merge is
faster for short reads, but slower for long reads. [no]
.SS Alignment options .SS Alignment options
.TP 10 .TP 10
.BI -A \ INT .BI -A \ INT
@ -441,7 +445,7 @@ tag ignores introns to demote hits to pseudogenes.
Short single-end reads without splicing Short single-end reads without splicing
.RB ( -k21 .RB ( -k21
.B -w11 --sr --frag -A2 -B8 -O12,32 -E2,1 -r50 -p.5 -N20 -f1000,5000 -n2 -m20 .B -w11 --sr --frag -A2 -B8 -O12,32 -E2,1 -r50 -p.5 -N20 -f1000,5000 -n2 -m20
.B -s40 -g200 -2K50m .B -s40 -g200 -2K50m --heap-sort
.BR --secondary=no ). .BR --secondary=no ).
.RE .RE
.SS Miscellaneous options .SS Miscellaneous options