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Author SHA1 Message Date
Haoyu Cheng e17bed62c0 update readme 2020-01-04 12:07:24 +08:00
Haoyu Cheng 7ecd489edc update man-page 2020-01-04 12:01:35 +08:00
Haoyu Cheng d8416873f3 upadate man-page and readme 2020-01-04 11:54:08 +08:00
Haoyu Cheng 1e46798bfb update readme and help information 2020-01-02 08:58:50 +08:00
chhylp123 36b42c2d83 Merge pull request #3 from lh3/lh3-fix 
Changed output file names
 2019-12-31 07:06:11 -05:00
Haoyu Cheng cb487a761c fix bugs 2019-12-29 10:10:10 -05:00
Haoyu Cheng 4dd637127f fix bugs 2019-12-29 02:38:10 -05:00
Haoyu Cheng 8325685359 README 2019-12-28 16:57:36 -05:00
Haoyu Cheng 443a9449b7 update result 2019-12-28 16:56:05 -05:00
Haoyu Cheng 4095fc2839 update result 2019-12-28 16:55:21 -05:00
Haoyu Cheng 4998cd87c7 update results 2019-12-28 16:46:34 -05:00
Haoyu Cheng a60a2d7ddd update help 2019-12-28 16:38:21 -05:00
Haoyu Cheng b65774fef5 README 2019-12-28 16:20:39 -05:00
Haoyu Cheng 8f21e7943f fix words 2019-12-28 16:19:50 -05:00
Haoyu Cheng ea248038c6 Update for overlaps 2019-12-28 16:18:50 -05:00
Haoyu Cheng 93ea81b2d2 README 2019-12-28 05:09:53 -05:00
Haoyu Cheng ba926db6ad README 2019-12-28 05:08:45 -05:00
Haoyu Cheng 54c80d8400 README 2019-12-28 05:07:35 -05:00
Haoyu Cheng 64d5ae10d4 README 2019-12-28 05:03:12 -05:00
Haoyu Cheng 14899c5f09 README 2019-12-28 05:00:44 -05:00
Haoyu Cheng f9e805854e README 2019-12-28 04:55:07 -05:00
Haoyu Cheng 1523d10291 README 2019-12-28 04:45:53 -05:00
Haoyu Cheng 8f549c1c16 README 2019-12-26 17:08:37 -05:00
Haoyu Cheng 94fb1342a6 README 2019-12-26 17:03:42 -05:00
Haoyu Cheng 24af570698 README 2019-12-26 16:58:29 -05:00
Haoyu Cheng 0b0dd2f741 README 2019-12-26 16:51:27 -05:00
Haoyu Cheng f1428835f1 README 2019-12-26 16:46:08 -05:00
Haoyu Cheng 991c4c3d22 README 2019-12-26 16:44:28 -05:00
Haoyu Cheng d72f9b9c3a readme 2019-12-26 16:32:26 -05:00
Haoyu Cheng 220dbd2a51 README 2019-12-26 16:13:07 -05:00
Haoyu Cheng c7553d7c8d README 2019-12-26 16:12:24 -05:00
Haoyu Cheng 10ea89197b README 2019-12-26 16:11:29 -05:00
Haoyu Cheng 6ddce421ad REDME 2019-12-26 16:05:25 -05:00
Haoyu Cheng ede8eb747b README 2019-12-26 16:01:08 -05:00
Haoyu Cheng f89d4d7201 README 2019-12-26 15:58:44 -05:00
Haoyu Cheng 3fa499ecde README 2019-12-26 15:57:04 -05:00
Haoyu Cheng 350bda5f76 README 2019-12-26 15:56:07 -05:00
Haoyu Cheng c5a191baeb README 2019-12-26 15:55:39 -05:00
Haoyu Cheng defebb73fd README 2019-12-26 15:54:09 -05:00
Haoyu Cheng a8df77962d README 2019-12-26 15:49:32 -05:00
Haoyu Cheng 4da7500e8b README 2019-12-26 15:47:46 -05:00
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