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Code Issues Packages Projects Releases Wiki Activity
213 Commits 11 Branches 54 Tags
c3f032da37a2b8d597d9898c82efd4e7258fb730
Commit Graph
47 Commits
Author SHA1 Message Date
Heng Li c3f032da37 r212: LIS chaining was not working 2020-04-09 10:43:37 -04:00
Heng Li c41aae0630 r211: added --write-paf/--write-ec/--skip-triobin 2020-04-08 22:32:54 -04:00
Heng Li 8efcdefcaf r207: multiple input files were not working 2020-04-07 12:40:10 -04:00
Heng Li a79fd0f360 r206: apply trio binning when loading from binary 2020-04-06 16:58:29 -04:00
Heng Li 1bbca54d8d r205: resume versioning 2020-04-06 09:59:43 -04:00
Heng Li adbc65feda r201: automatically adjust -N 2020-04-05 22:43:01 -04:00
Heng Li 3773610532 r200: reworked multi-thread for better efficiency 2020-04-05 16:18:14 -04:00
Heng Li 46f83e152d r199: renamed pre.ovlp.bin to pre.ec.bin 
Also updated the Makefile dependencies
 2020-04-05 13:45:50 -04:00
Heng Li 0f1994fc1f r198: made VERBOSE_GFA a CL option --dbg-gfa 2020-04-05 13:01:03 -04:00
Heng Li 31356f9e02 r197: added an assertion test/suppressed warnings 2020-04-05 12:22:28 -04:00
Heng Li 16a3d58dc9 r196: fixed a compiling error 2020-04-05 12:14:20 -04:00
Heng Li 5917aa2f36 Merge branch 'chain-tune' into merge2 2020-04-05 12:07:13 -04:00
Heng Li f0c53e9948 r192: estimate buffer memory 2020-04-05 11:17:12 -04:00
chhylp123 ac3fcc339a for purge_dup 2020-04-05 11:10:56 -04:00
Heng Li 8c27dbb52f r191: changed the default to -N400 -k51 -w51 2020-04-04 12:55:19 -04:00
Heng Li 4e3c15ec83 r190: fixed an if_exact() bug 
caused by reverse complement again
 2020-04-04 00:51:38 -04:00
Heng Li dbe66d259d r189: print statistics 2020-04-04 00:14:53 -04:00
Heng Li 69c32066d4 r188: reduced duplicated code 2020-04-03 23:53:43 -04:00
Heng Li 18b69f1a72 r187: reversed round in clear_opt() 2020-04-03 22:19:55 -04:00
Heng Li 76de054331 r186: fixed memory leaks when loading from disk 2020-04-03 20:35:47 -04:00
Heng Li 992322f8e3 r185: fixed a few more memory leaks 2020-04-03 20:14:20 -04:00
Heng Li 6f4d0debe4 r184: fixed a memory leak in POA 2020-04-03 14:10:40 -04:00
Heng Li d529dcea3f r183: reorganized the major workflow 2020-04-03 13:34:07 -04:00
Heng Li ffba3ce0ef r182: explain -N 2020-04-03 10:42:09 -04:00
Heng Li 968b4caef9 r181: limit the max number of chains 2020-04-02 21:55:00 -04:00
Heng Li 483ceb852c r179: replace one qsort() with ks_introsort() 2020-04-02 10:34:43 -04:00
Heng Li 7776dee103 r178: speedup chaining 2020-04-02 09:30:23 -04:00
Heng Li 878fe943c3 r177: combine the hifiasm and minimap2 heuristics 2020-04-01 23:07:42 -04:00
Heng Li b7e5d1c4d3 r176: enabled the minimap2 chaining heuristic 2020-04-01 22:06:14 -04:00
Heng Li e75b93ae12 r175: start versioning 2020-03-28 11:52:14 -04:00
Heng Li 5e16483b43 option to skip k-mer filtering 2020-03-27 22:32:39 -04:00
Heng Li 79bc553da6 removed hifiasm hash table index 2020-03-26 16:10:01 -04:00
Heng Li 3e897560c4 minimizer filtering apparently works 2020-03-25 00:38:13 -04:00
Heng Li f70257c260 support HPC k-mer 2020-03-24 19:58:21 -04:00
Heng Li 64edb06e08 NOT WORKING!!! added all k-mer counter 2020-03-24 12:29:46 -04:00
chhylp123 c72d419711 for hifiasm 3.0 2020-03-22 16:54:32 -04:00
chhylp123 c63ce670f7 improved N50 2020-01-14 10:59:51 -05:00
Haoyu Cheng d8416873f3 upadate man-page and readme 2020-01-04 11:54:08 +08:00
Haoyu Cheng 1523d10291 README 2019-12-28 04:45:53 -05:00
Haoyu Cheng 4ac9907e49 clean code 2019-12-26 02:26:24 -05:00
Haoyu Cheng ada03ea388 final DP-based assembly 2019-11-13 20:18:11 -05:00
Haoyu Cheng d5327fe9ee phasing 2019-09-02 10:30:14 -04:00
Haoyu Cheng 17553e0a42 S/L index&reads 2019-05-16 21:14:50 -04:00
Haoyu Cheng 45355a1103 Update position hash table 2019-05-14 17:02:03 -04:00
Haoyu Cheng 9302fc6058 Finish multiple thread counting 2019-05-12 02:16:20 -04:00
Haoyu Cheng 94bd75e576 Multiple threads reading 2019-05-11 00:19:16 -04:00
Haoyu Cheng 0b209dd1e9 Input reads 2019-05-10 00:11:19 -04:00