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Author	SHA1	Message	Date
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
Heng Li	db7e31f90d	Merge branch 'master' into new-mak	2019-11-22 15:01:28 -05:00
Haoyu Cheng	c7419d3e5e	ortholog-based cutting	2019-11-22 14:59:28 -05:00
Heng Li	cb3eecc5e0	added klib_unused to suppress kseq warnings	2019-11-22 14:47:54 -05:00
Heng Li	8ad76667f4	new Makefile	2019-11-22 14:43:37 -05:00
Heng Li	b81b7f9213	Fixed a compiling error caused by UINT32_MAX	2019-11-22 14:36:37 -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