77 Commits

Author	SHA1	Message	Date
chhylp123	86b7dd424a	avoid misassemblies; better polyploidy graph	2023-03-22 12:23:53 -04:00
chhylp123	04f660fd8c	bug fixed for mask calculation	2023-02-24 00:36:52 -05:00
chhylp123	3abd3793fb	clean graph alignment	2023-02-20 14:50:55 -05:00
chhylp123	b55e4396d2	prt_dbg_gfa -> before transitive reduction	2023-02-17 11:00:15 -05:00
chhylp123	286b897881	r513	2023-02-16 00:04:06 -05:00
chhylp123	f2da12a2ad	508 —> futhur graph cleaning	2023-02-12 22:49:12 -05:00
chhylp123	7ad498f631	r495-reuse misjoin detection	2023-01-12 00:21:43 -05:00
chhylp123	0613b18af9	r493 ->HiC/UL/Trans	2023-01-11 20:38:45 -05:00
chhylp123	9a454576e1	fixed memory issue within gen_single_khit	2022-11-25 20:49:14 -05:00
chhylp123	6de08fd91f	debug assert	2022-11-25 15:20:32 -05:00
chhylp123	2c7b164f11	tmp cache	2022-11-10 19:37:52 -05:00
chhylp123	46acc8a2f6	version with wrong realignment	2022-11-07 02:35:26 -05:00
chhylp123	612c1ab712	cuttoff before debugging	2022-11-05 09:03:23 -04:00
chhylp123	e66c003b65	cleaner graph	2022-11-01 21:44:13 -04:00
chhylp123	f4b6223fde	cutoff-r426-avoid-tip	2022-10-31 15:18:52 -04:00
chhylp123	249bee7304	done contain clean	2022-10-27 17:05:46 -04:00
chhylp123	df3e0eeaa3	read extract	2022-10-19 13:23:25 -04:00
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