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68 Commits 11 Branches 54 Tags
cd16ad6617f891f6c3edd73e1fa169dff3259db3
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Author SHA1 Message Date
Haoyu Cheng cd16ad6617 README 2019-12-26 15:45:24 -05:00
Haoyu Cheng a1e32ee2a2 README 2019-12-26 15:43:58 -05:00
Haoyu Cheng cd2300907a README 2019-12-26 15:32:11 -05:00
Haoyu Cheng 57b30d967a README 2019-12-26 15:23:57 -05:00
Haoyu Cheng 53aba41bdd README 2019-12-26 15:20:33 -05:00
Haoyu Cheng 16ae545ee1 README 2019-12-26 14:56:21 -05:00
Haoyu Cheng f2c46290b2 README 2019-12-26 14:52:13 -05:00
Haoyu Cheng 9ef00f749a update README 2019-12-26 14:44:11 -05:00
Haoyu Cheng dc67fc6d2b test readme 2019-12-26 14:31:00 -05:00
Haoyu Cheng 53d1692331 fix TODO 2019-12-26 12:42:50 -05:00
chhylp123 7c2c0a5af3 Merge pull request #2 from lh3/fix-warnings 
Fixed compiler warnings
 2019-12-26 12:21:52 -05:00
Haoyu Cheng 907458fad2 remove extra file 2019-12-26 02:27:43 -05:00
Haoyu Cheng 4ac9907e49 clean code 2019-12-26 02:26:24 -05:00
Haoyu Cheng 7f9c73507d same haplotype chimeric reads detection 2019-12-24 14:43:12 -05:00
Haoyu Cheng 29fe35eb21 remove debug information 2019-12-24 10:37:40 -05:00
Haoyu Cheng ea51239441 new chimeric detection 2019-12-24 05:03:59 -05:00
Haoyu Cheng 1ead2d3081 M50 improved 2019-12-23 09:37:26 -05:00
Haoyu Cheng 06556e4a9b backup without bundaries processing 2019-12-17 16:58:20 -05:00
Haoyu Cheng 90195293f1 for backup 2019-12-12 20:12:52 -05:00
Haoyu Cheng 9c25075fed update for base-level alignment 2019-12-12 03:06:47 -05:00
Haoyu Cheng f1cde019a9 for break points at chr11 2019-12-12 00:31:24 -05:00
Haoyu Cheng 09603432e5 fix bugs for overlaps of different length 2019-12-09 17:07:11 -05:00
Haoyu Cheng fca9c8db15 fix cross-chr bugs 2019-11-30 16:01:37 -05:00
Haoyu Cheng f95691db3a generate contig 2019-11-27 15:07:33 -05:00
Haoyu Cheng cb26e0ecd4 unclean graph 2019-11-22 21:58:56 -05:00
chhylp123 2a8e0dc254 Merge pull request #1 from lh3/new-mak 
New makefile; fixed a compiling error
 2019-11-22 15:13:20 -05:00
Haoyu Cheng c7419d3e5e ortholog-based cutting 2019-11-22 14:59:28 -05:00
Haoyu Cheng 3425bd020b more cutting methods 2019-11-20 15:43:44 -05:00
Haoyu Cheng e8ff0c1dbc backup 2019-11-19 01:32:39 -05:00
Haoyu Cheng ada03ea388 final DP-based assembly 2019-11-13 20:18:11 -05:00
Haoyu Cheng d6c6a1fa11 DP 2019-09-07 21:25:11 -04:00
Haoyu Cheng b57923d050 2019_9_5 2019-09-05 11:47:54 -04:00
Haoyu Cheng d5327fe9ee phasing 2019-09-02 10:30:14 -04:00
Haoyu Cheng 3c0c201cdf improve speed 2019-08-26 02:22:20 -04:00
Haoyu Cheng 6802d873cf fix insertion bug 2019-07-18 03:02:58 -04:00
Haoyu Cheng ad8a4c9c65 full error correction 2019-07-14 21:13:50 -04:00
Haoyu Cheng f508762557 resure alignment 2019-07-12 10:18:25 -04:00
Haoyu Cheng 3d88530385 debug 2019-07-09 22:15:58 -04:00
Haoyu Cheng 4eddb02dbd prefilter 2019-07-09 15:11:04 -04:00
Haoyu Cheng 1892b4d2db prefilter 2019-07-08 01:06:36 -04:00
Haoyu Cheng 87873d6323 edit distance based error correction 2019-07-07 03:44:59 -04:00
Haoyu Cheng b553f3ac5e POA 2019-07-01 09:08:25 -04:00
Haoyu Cheng 30161f1544 overlap 2019-06-23 23:28:28 -04:00
Haoyu Cheng e3924b5c08 Change stupid merge function 2019-05-19 05:02:28 -04:00
Haoyu Cheng 63509bcb7f Accelerate overlap merge 2019-05-18 11:36:42 -04:00
Haoyu Cheng ddd96d8456 Merge overlap 2019-05-18 01:03:24 -04:00
Haoyu Cheng 87a6091ffe Fix bug 2019-05-17 00:54:04 -04:00
Haoyu Cheng 7cebaf271b Fix bug 2019-05-17 00:52:10 -04:00
Haoyu Cheng 17553e0a42 S/L index&reads 2019-05-16 21:14:50 -04:00
Haoyu Cheng 3c5799aa1b Reduce memory requirement 2019-05-16 00:22:20 -04:00
Haoyu Cheng 45355a1103 Update position hash table 2019-05-14 17:02:03 -04:00
Haoyu Cheng df18b5af76 Update modimers 2019-05-12 04:03:54 -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 eee68408be Using klib 2019-05-10 16:14:01 -04:00
Haoyu Cheng 0b209dd1e9 Input reads 2019-05-10 00:11:19 -04:00
Haoyu Cheng 8d7672e708 test README 2019-05-09 16:05:32 -04:00
Haoyu Cheng acc52991a7 Add main.cpp 2019-05-09 16:03:46 -04:00
chhylp123 4a95a2b5ab Initial commit 2019-05-09 15:34:58 -04:00