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r180: changed -x asm5 settings

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Heng Li
2017-07-18 00:00:36 -04:00
parent 941059292e
commit 71e2a97a4c
3 changed files with 10 additions and 8 deletions
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@@ -184,12 +184,12 @@ Oxford Nanopore all-vs-all overlap mapping (-k15 -w5 -Xp0 -m100 -K500m -g10000 -
PacBio/Oxford Nanopore read to reference mapping (-Hk19)
.TP
.B asm5
Long assembly to reference mapping (-k19 -w19 -A1 -B19 -O39,61 -E2,1 -s200).
Long assembly to reference mapping (-k19 -w19 -A1 -B19 -O39,81 -E3,1 -s200 -z200).
Typically, the alignment will not extend to regions with 5% or higher sequence
divergence. Only use this preset if the average divergence is far below 5%.
.TP
.B asm10
Long assembly to reference mapping (-k19 -w19 -A1 -B9 -O16,41 -E2,1 -s200). Up
Long assembly to reference mapping (-k19 -w19 -A1 -B9 -O16,41 -E2,1 -s200 -z200). Up
to 10% sequence divergence.
.RE
.TP