173 Commits

Author	SHA1	Message	Date
chhylp123	89e0d1aafa	UL graph with graph cleaning	2022-08-02 15:48:16 -04:00
chhylp123	33afa25398	UL graph done	2022-07-24 18:13:16 -04:00
chhylp123	98bb89227e	integer correction	2022-06-07 16:56:28 -04:00
chhylp123	74ad15846e	small bugs fixed	2022-05-14 22:07:55 -04:00
chhylp123	8a2bb0b112	memory debugging	2022-05-04 20:22:50 -04:00
chhylp123	e8399b18f1	fixed duplicated chaining issue	2022-05-03 17:35:43 -04:00
chhylp123	8138941a26	new realignment	2022-05-03 00:59:24 -04:00
chhylp123	fdf24d5589	fix memory bug/logic bug	2022-05-01 00:37:32 -04:00
chhylp123	9c79bdfe7f	UL_gdp	2022-04-13 16:15:03 -04:00
chhylp123	95eb2de2b9	roughly right chaining	2022-03-25 00:29:58 -04:00
chhylp123	d3b9de4120	new gchain	2022-03-16 01:13:27 -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	dbc72b8c2d	has bug multiple threads	2021-12-28 21:48:41 -05:00
chhylp123	8a0ec3d575	change ug extraction	2021-12-12 20:59:48 -05:00
chhylp123	9ec286e64e	new ul	2021-12-11 14:55:36 -05:00
chhylp123	b640289b19	better read phasing	2021-12-07 22:47:52 -05:00
chhylp123	1e2a9518e5	print dup log	2021-11-29 15:11:02 -05:00
chhylp123	763634e1a9	kpt_dup	2021-11-28 19:35:32 -05:00
chhylp123	26aacdcc2c	correct gchains	2021-10-14 15:33:16 -04:00
chhylp123	cb320b88f3	debug ul	2021-10-10 13:37:32 -04:00
chhylp123	7dd4a848b9	debug graph	2021-09-26 13:51:13 -04:00
chhylp123	809ca18dda	r373	2021-09-10 17:17:44 -04:00
chhylp123	37b07e4d33	better seeding	2021-08-22 09:53:34 -04:00
chhylp123	bfff640a82	dp opt	2021-08-12 11:16:10 -04:00
chhylp123	3c8a933b8a	Merge remote-tracking branch 'origin/dev-lh3'	2021-07-27 19:50:29 -04:00
chhylp123	b14f894160	seperate purgeing and hom peak	2021-07-25 11:23:06 -04:00
chhylp123	62b7418257	update 0.15.5	2021-07-22 00:59:52 -04:00
chhylp123	a531a4cbda	debugging for huge datasets	2021-06-27 07:48:29 -04:00
chhylp123	5b0a0c85ef	ovlp filter	2021-06-13 17:35:09 -04:00
chhylp123	9dc530cbfb	low hamming for sampels with low het rate	2021-06-09 20:10:50 -04:00
chhylp123	ca67e7a9b3	rollback	2021-05-31 18:16:20 -04:00
chhylp123	aa164949f2	backup phasing	2021-05-31 04:19:05 -04:00
chhylp123	e774a83be2	debug mbg	2021-05-30 09:02:25 -04:00
chhylp123	a39f01f4d8	haplotype popping	2021-05-24 19:43:50 -04:00
chhylp123	46c0157f79	new ovlp collect	2021-05-22 10:47:58 -04:00
chhylp123	626787ab8a	complex cleaning	2021-05-20 17:03:18 -04:00
chhylp123	5c1680e998	fix missed ug when bubble popping	2021-05-19 10:16:23 -04:00
chhylp123	b12e008416	new somatic variant popping	2021-05-19 09:52:40 -04:00
chhylp123	be8e1e3117	sc debug	2021-05-17 00:12:41 -04:00
chhylp123	4105dd360e	correction	2021-05-11 13:01:06 -04:00
chhylp123	7918396d21	collect contig alignment + renew_utg bug fixed	2021-05-09 17:47:50 -04:00
chhylp123	9ea4f6917f	resolve centromere	2021-05-06 07:59:51 -04:00
chhylp123	24e5453781	bug fix	2021-05-02 14:16:36 -04:00
chhylp123	9c205c8271	resove tangle by hic	2021-04-30 22:44:48 -04:00
chhylp123	71e91f3fc2	assgin disconnected parts	2021-04-28 20:27:43 -04:00
chhylp123	2fc2268268	phasing improvement	2021-04-27 21:35:49 -04:00
chhylp123	11430d6a3b	r329	2021-04-25 14:50:36 -04:00
chhylp123	7b07e355b7	bug fix for bubble scanning	2021-04-23 20:40:43 -04:00
chhylp123	475ebb8075	keep long range information	2021-04-20 01:29:15 -04:00