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65 Commits 3 Branches 2 Tags 1.6 MiB
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65 Commits

Author SHA1 Message Date
Heng Li 247e867757 implemented %f/e/g in ksprintf_fast(); unfinished 2011-07-24 23:56:00 -04:00
Heng Li ed80857e9a better implementation of ksprintf_fast() 2011-07-20 11:45:11 -04:00
Heng Li fad2817ec4 added ksprintf_fast(); improve later... 2011-07-20 09:05:17 -04:00
Heng Li 27adf9c6a0 added Makefile 2011-07-02 15:16:03 -04:00
Heng Li 9b967f5084 move testing program to a separate directory 2011-07-02 15:02:47 -04:00
Heng Li 59e52644d2 change to 0 indexed array 2011-06-03 22:14:16 -04:00
Heng Li 5c7ada67e8 remove the thresholding version 2011-05-17 21:19:06 -04:00
Heng Li 8f06ff0d47 do not use shift for the "short" version 2011-05-08 18:40:41 -04:00
Heng Li e6a5433bbb fixed a bug in computing qe 2011-05-08 18:31:06 -04:00
Heng Li 7f245c1428 added 16-bit sse2; query-end seems wrong, sometime 2011-05-08 18:20:54 -04:00
Heng Li c982d82d84 find the 2nd best score; still imperfect... 2011-05-08 00:21:18 -04:00
Heng Li 3f2b354fcc use integer gmax; code cleanup 2011-05-07 23:59:17 -04:00
Heng Li fe4991465e minor change 2011-05-07 23:42:59 -04:00
Heng Li 8dbe31c622 prepare to keep the 2nd largest score 2011-05-07 23:08:39 -04:00
Heng Li 93f537223b keep the ending position 2011-05-07 16:56:00 -04:00
Heng Li 0d5864823f update README 2011-05-05 22:25:09 -04:00
Heng Li 3a2145ef86 a heuristic to relax the 255 max score limit 2011-05-05 22:21:29 -04:00
Heng Li 138a12ce29 simplify a bit 2011-05-05 21:44:20 -04:00
Heng Li 765cb6c1d1 fixed a stupid bug 2011-05-05 19:32:03 -04:00
Heng Li f5f13055ec added reverse alignment 2011-05-05 17:44:20 -04:00
Heng Li 13086ed5dc more comments 2011-05-05 15:58:57 -04:00
Heng Li 9dcbb97e0e added license and a couple of comments 2011-05-05 15:39:04 -04:00
Heng Li b9ba62ec2c Added a simple CLI 2011-05-05 15:29:02 -04:00
Heng Li f595725050 added a few comments 2011-05-05 13:43:16 -04:00
Heng Li 502b7bb063 allocate query profile in one memory block 2011-05-05 13:38:26 -04:00
Heng Li 8ea25d34dd incorporate ideas from swps3 2011-05-05 13:27:18 -04:00
Heng Li e7d8f752d9 SSE2 Smith-Waterman; unfinished 2011-05-05 12:42:29 -04:00
Heng Li 9aaabb7bea bugfix in os.getopt(): "-" not recognized 2011-05-01 22:53:07 -04:00
Heng Li 51bdfac494 C verions of Keith's C++ progs; see inner comments 2011-04-30 23:17:56 -04:00
Heng Li d6f631143e all minor changes 2011-04-21 12:29:30 -04:00
Heng Li c547611fb9 added Spearman coefficient 2011-04-20 23:40:52 -04:00
Heng Li 947606978c added Pearson correlation coefficient 2011-04-20 23:09:23 -04:00
Heng Li 9e83d423dd code cleanup in intvovlp 2011-04-18 10:02:00 -04:00
Heng Li 8cc5761f65 added some comments 2011-04-18 01:47:51 -04:00
Heng Li b09ca93584 added quick overlap testing 2011-04-18 01:35:16 -04:00
Heng Li d37245b761 benchmark performance given unaligned memory 2011-04-17 22:06:31 -04:00
Heng Li 5b2ce9cd46 Added ks_shuffle() and ks_sample() 2011-04-10 23:29:45 -04:00
Heng Li cf855128a6 fixed a bug in example 2011-04-06 22:39:57 -04:00
Heng Li 5c8bee7867 changed some comments 2011-04-06 20:48:51 -04:00
Heng Li 54004e39cf added table.shuffle() 2011-04-06 12:19:14 -04:00
Heng Li 1f2ef7afd5 update README 2011-04-06 10:23:24 -04:00
Heng Li 9b7c40d3b6 Move klua here and rename klua to klib 2011-04-06 10:07:10 -04:00
Heng Li de4e7945fb benchmark mergesort on sorted arrays 2011-04-04 12:15:35 -04:00
Heng Li ec8a965711 Allow to init global functions (0.2.5) 2011-02-14 16:33:27 -05:00
Heng Li d8d0c5fbcb accelerate kstrtok() 2011-02-12 18:52:08 -05:00
Heng Li 25d0c332ce avoid a segfault when connection fails 2011-01-29 21:55:39 -05:00
Heng Li 9786b65704 Change /2 to >>1. Surprisingly this improves the speed... 2011-01-16 19:37:21 -05:00
Heng Li 79b8a01217 Updated README 2011-01-13 20:41:07 -05:00
Attractive Chaos 3b48202b69 Changed all to most 2011-01-13 13:41:47 -05:00
Attractive Chaos ce6ad6bfc3 Update README 2011-01-13 13:20:28 -05:00