Heng Li
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3c997ca016
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r337: support CPU dispatch for gcc-4.8+
using __builtin_cpu_supports()
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2017-09-03 14:29:49 -04:00 |
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Heng Li
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993a2bb521
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r301: separate introns from deletions
When an intron is adjacent to a deletion, the old code count both as introns,
which lead to an inaccurate exon boundary.
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2017-08-18 15:31:15 +08:00 |
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Heng Li
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43506edbc5
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backup: preliminary boundary alignment
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2017-08-12 23:10:14 -04:00 |
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Heng Li
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61eef0575c
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separate out spliced alignment; not right yet
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2017-08-12 18:54:32 -04:00 |
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Heng Li
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163fa36ee6
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r281: don't open long gaps on query
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2017-08-10 15:04:59 -04:00 |
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Heng Li
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5934d68772
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r229: a new way to prevent out-of-band backtrack
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2017-07-29 23:52:30 -04:00 |
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Heng Li
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d08b7a0c51
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r227: use local alignment for INV alignment
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2017-07-29 17:40:53 -04:00 |
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Heng Li
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71c988f6ab
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r188: renamed bseq* to mm_bseq*
to avoid naming collisions between minimap2 and bwa/fermi-lite/etc
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2017-07-19 09:26:46 -04:00 |
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Heng Li
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cc554aee43
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r159: use two-piece gap penalty
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2017-07-08 10:26:00 -04:00 |
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Heng Li
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d274e1b743
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backup
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2017-06-29 12:58:52 -04:00 |
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Heng Li
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5e202afb5f
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fixed invalid backtracking, a temporary solution
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2017-06-28 18:17:57 -04:00 |
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Heng Li
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42283ef10c
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r87: fixed a bug in ksw2
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2017-06-27 13:29:48 -04:00 |
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Heng Li
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c02ff4662c
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r85: two-round z-drop
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2017-06-27 10:36:24 -04:00 |
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Heng Li
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4fea3d778a
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backup
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2017-06-23 18:57:00 -04:00 |
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Heng Li
|
c6d5dea314
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replace with newer versions
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2017-06-22 12:30:45 -04:00 |
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Heng Li
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fbfd4a3eff
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to replace
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2017-06-22 12:30:22 -04:00 |
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Heng Li
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fe8327500f
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implemented SSE version; NOT working yet
need to take a rest. Debugging is going to be tough.
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2017-06-16 21:35:51 -04:00 |
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Heng Li
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7d33acbccc
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diagonal global almost working
one shot, though gaps not left-aligned at the boundary
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2017-06-16 12:17:23 -04:00 |
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Heng Li
|
78fe89d1ab
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revert to fixed band
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2017-06-14 14:22:23 -04:00 |
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Heng Li
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d3f17b1e05
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updated ksw
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2017-06-11 16:51:01 -04:00 |