 zzh
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7d085962a2
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开始改成sbwa那种batch模式
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2024-03-07 18:23:21 +08:00 |
zzh
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6e1dd08fb6
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将seed和extend部分修改成了batch模式，好像没啥效果
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2024-02-23 01:09:08 +08:00 |
Heng Li
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0c783399e8
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dev-448: different ins/del penalties
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2014-03-28 10:54:23 -04:00 |
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Heng Li
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3d8a8c1e37
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r374: fix - clipping penalty not always working
This only happens to gaps where mem underestimates the bandwidth without
considering the clipping penalty.
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2013-04-10 01:09:37 -04:00 |
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Heng Li
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e0991d6a45
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r323: added Z-dropoff, a variant of blast's X-drop
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2013-03-05 00:34:33 -05:00 |
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Heng Li
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59bc9341f6
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code backup; more changes coming later
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2013-03-04 17:29:07 -05:00 |
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Heng Li
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64d92d26df
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more documentation in ksw.h
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2013-02-27 21:40:46 -05:00 |
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Heng Li
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4bb0bdddca
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r306: introduce clipping penalty
More clipping leads to more severe reference bias. We should not clip the
alignment unless necessary.
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2013-02-27 21:13:39 -05:00 |
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Heng Li
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28a7d501f2
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updated to the latest ksw; NOT TESTED YET!!!
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2013-02-12 16:35:05 -05:00 |
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Heng Li
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d8e4d57956
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Don't use narrow band.
I may retry this feature if the profilter indicates that this greatly helps.
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2013-02-07 21:22:54 -05:00 |
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Heng Li
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d91e320972
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towards reimplementing banded NW alignment
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2013-02-05 12:06:56 -05:00 |
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Heng Li
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788e9d1e3d
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fixed a couple of leaks; buggy atm
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2013-02-04 15:40:26 -05:00 |
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Heng Li
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ba18db1a9f
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sw extension works for the simplest case
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2013-02-04 12:37:38 -05:00 |
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Heng Li
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e8a1962efe
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code backup; it is wrong
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2013-02-03 17:25:40 -05:00 |
Heng Li
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c8c79ef024
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mate rescue seems working (not MT)
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2011-11-06 16:20:40 -05:00 |