 Heng Li
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c4397a9400
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r226: more careful about ma_hit_t_alloc memory
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2020-04-11 22:05:07 -04:00 |
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Heng Li
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e6b5b666a2
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r224: versioning
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2020-04-11 00:14:33 -04:00 |
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Heng Li
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54fa1a9aed
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Merge branch 'master' into dev-lh3
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2020-04-11 00:08:35 -04:00 |
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chhylp123
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20c6c1d2e6
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update trio-binning
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2020-04-10 23:32:15 -04:00 |
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Heng Li
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c710c6ea48
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r221: sync with hifiasm parameter
Probably has no practical effect
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2020-04-10 21:49:01 -04:00 |
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Heng Li
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c37ea00d6a
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r220: resumed versioning
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2020-04-10 19:12:32 -04:00 |
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Heng Li
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ad1b79a6bb
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Merge branch 'flt-p' into dev-lh3
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2020-04-10 14:03:44 -04:00 |
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chhylp123
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943b6947cb
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update purge_dup by LIS
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2020-04-10 13:58:36 -04:00 |
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Heng Li
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22b2e1e9e1
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r217: fixed a bug in LIS chaining score
Also fall back to DP chaining more often
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2020-04-10 13:25:25 -04:00 |
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Heng Li
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15591c9038
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improve documentation
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2020-04-10 11:04:35 -04:00 |
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Heng Li
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71328f7423
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r215: binning with external list (NOT TESTED!!)
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2020-04-10 01:06:43 -04:00 |
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Heng Li
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f32bfc904a
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r215: prepare for list-based binning
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2020-04-10 00:12:19 -04:00 |
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Heng Li
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7a35bd7fcc
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r213: renamed trio binning output files
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2020-04-09 20:40:01 -04:00 |
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Heng Li
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c3f032da37
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r212: LIS chaining was not working
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2020-04-09 10:43:37 -04:00 |
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Heng Li
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c41aae0630
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r211: added --write-paf/--write-ec/--skip-triobin
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2020-04-08 22:32:54 -04:00 |
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Heng Li
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23dbfdef77
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Merge branch 'master' into dev-lh3
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2020-04-08 18:32:33 -04:00 |
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chhylp123
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a288415111
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bug fixing for purge_dup
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2020-04-08 16:55:04 -04:00 |
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Heng Li
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8efcdefcaf
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r207: multiple input files were not working
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2020-04-07 12:40:10 -04:00 |
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chhylp123
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9cc563c7c6
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do hap alignment in parallel
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2020-04-07 11:18:28 -04:00 |
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Heng Li
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a79fd0f360
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r206: apply trio binning when loading from binary
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2020-04-06 16:58:29 -04:00 |
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Heng Li
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1bbca54d8d
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r205: resume versioning
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2020-04-06 09:59:43 -04:00 |
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Heng Li
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2d0087104f
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Merge branch 'master' into merge3
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2020-04-06 08:25:54 -04:00 |
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Heng Li
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7f580850e8
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Merge branch 'master' of github.com:chhylp123/hifiasm
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2020-04-06 08:25:21 -04:00 |
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chhylp123
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87fc103e63
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fix small bug
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2020-04-06 02:03:34 -04:00 |
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Heng Li
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adbc65feda
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r201: automatically adjust -N
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2020-04-05 22:43:01 -04:00 |
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Heng Li
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3773610532
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r200: reworked multi-thread for better efficiency
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2020-04-05 16:18:14 -04:00 |
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Heng Li
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46f83e152d
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r199: renamed pre.ovlp.bin to pre.ec.bin
Also updated the Makefile dependencies
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2020-04-05 13:45:50 -04:00 |
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Heng Li
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0f1994fc1f
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r198: made VERBOSE_GFA a CL option --dbg-gfa
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2020-04-05 13:01:03 -04:00 |
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Heng Li
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31356f9e02
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r197: added an assertion test/suppressed warnings
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2020-04-05 12:22:28 -04:00 |
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Heng Li
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16a3d58dc9
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r196: fixed a compiling error
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2020-04-05 12:14:20 -04:00 |
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Heng Li
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5917aa2f36
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Merge branch 'chain-tune' into merge2
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2020-04-05 12:07:13 -04:00 |
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chhylp123
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c57b63653d
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Merge pull request #8 from chhylp123/flt-p
for purge_dup
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2020-04-05 11:44:56 -04:00 |
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Heng Li
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f0c53e9948
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r192: estimate buffer memory
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2020-04-05 11:17:12 -04:00 |
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chhylp123
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ac3fcc339a
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for purge_dup
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2020-04-05 11:10:56 -04:00 |
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Heng Li
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8c27dbb52f
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r191: changed the default to -N400 -k51 -w51
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2020-04-04 12:55:19 -04:00 |
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Heng Li
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4e3c15ec83
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r190: fixed an if_exact() bug
caused by reverse complement again
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2020-04-04 00:51:38 -04:00 |
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Heng Li
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dbe66d259d
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r189: print statistics
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2020-04-04 00:14:53 -04:00 |
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Heng Li
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69c32066d4
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r188: reduced duplicated code
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2020-04-03 23:53:43 -04:00 |
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Heng Li
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18b69f1a72
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r187: reversed round in clear_opt()
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2020-04-03 22:19:55 -04:00 |
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Heng Li
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76de054331
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r186: fixed memory leaks when loading from disk
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2020-04-03 20:35:47 -04:00 |
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Heng Li
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992322f8e3
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r185: fixed a few more memory leaks
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2020-04-03 20:14:20 -04:00 |
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Heng Li
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6f4d0debe4
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r184: fixed a memory leak in POA
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2020-04-03 14:10:40 -04:00 |
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Heng Li
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d529dcea3f
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r183: reorganized the major workflow
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2020-04-03 13:34:07 -04:00 |
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Heng Li
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ffba3ce0ef
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r182: explain -N
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2020-04-03 10:42:09 -04:00 |
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Heng Li
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968b4caef9
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r181: limit the max number of chains
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2020-04-02 21:55:00 -04:00 |
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Heng Li
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3838482851
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moved sorting to anchor.cpp for future changes
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2020-04-02 19:18:29 -04:00 |
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Heng Li
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483ceb852c
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r179: replace one qsort() with ks_introsort()
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2020-04-02 10:34:43 -04:00 |
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Heng Li
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7776dee103
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r178: speedup chaining
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2020-04-02 09:30:23 -04:00 |
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Heng Li
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878fe943c3
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r177: combine the hifiasm and minimap2 heuristics
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2020-04-01 23:07:42 -04:00 |
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Heng Li
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b7e5d1c4d3
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r176: enabled the minimap2 chaining heuristic
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2020-04-01 22:06:14 -04:00 |
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