60 Commits

Author	SHA1	Message	Date
chhylp123	3d65bef9de	adjusted chain sc	2022-10-09 18:14:07 -04:00
chhylp123	1d0562ebd1	done second alignment	2022-10-09 16:59:54 -04:00
chhylp123	2443e63ef5	done chaining	2022-10-08 14:51:03 -04:00
chhylp123	f92cef38f2	uodate gchain	2022-10-07 15:14:08 -04:00
chhylp123	8a4d6a5f24	done alignemnt	2022-10-04 15:31:23 -04:00
chhylp123	68a74fb16d	cigar collect	2022-10-02 14:38:49 -04:00
chhylp123	41437764f0	before window filling	2022-10-01 23:42:38 -04:00
chhylp123	bbd3394b4a	lack final alignment	2022-10-01 19:53:02 -04:00
chhylp123	20a7dac82a	backup for minimizer	2022-09-28 11:16:09 -04:00
chhylp123	236bc7b9ee	backup for minimizer	2022-09-28 11:15:29 -04:00
chhylp123	a297105258	cal_exz_infi	2022-09-24 16:16:54 -04:00
chhylp123	38e00d2086	shared seeds	2022-09-23 22:17:38 -04:00
chhylp123	f4cc895fa0	update ed	2022-09-20 22:48:59 -04:00
chhylp123	4e7bb7eeb9	fix cigar	2022-09-18 23:17:58 -04:00
chhylp123	774c585562	infi ed	2022-09-16 21:34:36 -04:00
chhylp123	54b733ef2f	inner define	2022-09-14 21:10:31 -04:00
chhylp123	69d0e18fe5	ed macro	2022-09-14 15:38:55 -04:00
chhylp123	2300dc63bb	extension	2022-09-14 00:23:44 -04:00
chhylp123	5da05f308f	extend ed alignment	2022-09-13 17:29:27 -04:00
chhylp123	ee51a6dddc	seperate alignment	2022-09-04 00:18:51 -04:00
chhylp123	cc16626dfa	debug cigar_offset	2022-09-01 23:16:08 -04:00
chhylp123	7b89478b2e	code clean	2022-08-28 02:39:05 -04:00
chhylp123	8b7ca5f0c3	revised HiFi phasing	2022-08-23 10:36:35 -04:00
chhylp123	74ad15846e	small bugs fixed	2022-05-14 22:07:55 -04:00
chhylp123	832e43fe3b	smaller cigar size	2022-05-12 18:31:31 -04:00
chhylp123	a2198891e7	smaller memory requirement	2022-05-12 16:15:58 -04:00
chhylp123	3064e1373b	better uovlp saving	2022-04-22 23:10:21 -04:00
chhylp123	95eb2de2b9	roughly right chaining	2022-03-25 00:29:58 -04:00
chhylp123	9c6a3607d1	intergration correctio	2022-03-01 20:25:53 -05:00
chhylp123	0ce5a7ba5b	integration/print het sites	2022-01-17 18:29:48 -05:00
chhylp123	7af0d85258	backup	2021-12-29 21:22:43 -05:00
chhylp123	b640289b19	better read phasing	2021-12-07 22:47:52 -05:00
chhylp123	724990cbe7	freeze-r304	2020-08-23 23:34:36 -04:00
chhylp123	03cf0d475c	save bfore multiple overlaps	2020-08-23 08:46:33 -04:00
chhylp123	ace34ae2b8	for high-het and coverage	2020-07-28 13:07:35 -04:00
Heng Li	3364a29b87	r249: make max overlap error rate CLI options	2020-05-06 01:16:50 -04:00
Heng Li	7079a9f306	working on mid-sized test example	2020-03-27 16:55:28 -04:00
chhylp123	6246132702	update for 0.2.0	2020-02-07 14:52:14 -05:00
Heng Li	03c8899a34	fixed clang warnings	2019-12-26 09:40:35 -05:00
Haoyu Cheng	4ac9907e49	clean code	2019-12-26 02:26:24 -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	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