97 Commits

Author	SHA1	Message	Date
chhylp123	dd8888aa90	backup for memory issues	2022-05-05 19:35:06 -04:00
chhylp123	e8399b18f1	fixed duplicated chaining issue	2022-05-03 17:35:43 -04:00
chhylp123	d3b9de4120	new gchain	2022-03-16 01:13:27 -04:00
chhylp123	0ce5a7ba5b	integration/print het sites	2022-01-17 18:29:48 -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	ab80851b94	mempcpy -> memcpy	2021-09-12 17:43:43 -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	aa164949f2	backup phasing	2021-05-31 04:19:05 -04:00
chhylp123	e774a83be2	debug mbg	2021-05-30 09:02:25 -04:00
chhylp123	7b07e355b7	bug fix for bubble scanning	2021-04-23 20:40:43 -04:00
chhylp123	fda13cb0e4	update -z	2021-02-02 12:45:50 -05:00
chhylp123	9d4e3b3283	update polishing	2020-10-18 17:59:31 -04:00
chhylp123	89fcb35a64	for debugging	2020-10-11 14:32:33 -04:00
chhylp123	55f95c0191	fix typo	2020-08-26 00:25:42 -04:00
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
chhylp123	952471657f	change max coverage of pri-range	2020-07-18 17:40:58 -04:00
chhylp123	fda858f9e7	update coverage	2020-07-13 22:34:26 -04:00
chhylp123	c01b593d7c	using coverage	2020-07-12 16:03:01 -04:00
chhylp123	a25c37ed89	update k-mer peaks	2020-07-07 13:20:25 -04:00
chhylp123	71f6c93d58	add options	2020-06-08 17:51:36 -04:00
Heng Li	eddbc61952	r254: added --ex-list and --ex-iter	2020-06-03 20:46:34 -04:00
chhylp123	d36e1e7782	fixed bugs for trio-binning	2020-05-17 11:53:12 -04:00
Heng Li	cdd5f3e4e0	r234: fixed a bug for -r of an odder number	2020-04-12 19:25:53 -04:00
Heng Li	c4397a9400	r226: more careful about ma_hit_t_alloc memory	2020-04-11 22:05:07 -04:00
Heng Li	e6b5b666a2	r224: versioning	2020-04-11 00:14:33 -04:00
Heng Li	54fa1a9aed	Merge branch 'master' into dev-lh3	2020-04-11 00:08:35 -04:00
chhylp123	20c6c1d2e6	update trio-binning	2020-04-10 23:32:15 -04:00
Heng Li	c37ea00d6a	r220: resumed versioning	2020-04-10 19:12:32 -04:00
Heng Li	f32bfc904a	r215: prepare for list-based binning	2020-04-10 00:12:19 -04:00
Heng Li	c41aae0630	r211: added --write-paf/--write-ec/--skip-triobin	2020-04-08 22:32:54 -04:00
Heng Li	23dbfdef77	Merge branch 'master' into dev-lh3	2020-04-08 18:32:33 -04:00
chhylp123	a288415111	bug fixing for purge_dup	2020-04-08 16:55:04 -04:00
Heng Li	a79fd0f360	r206: apply trio binning when loading from binary	2020-04-06 16:58:29 -04:00
Heng Li	1bbca54d8d	r205: resume versioning	2020-04-06 09:59:43 -04:00
Heng Li	2d0087104f	Merge branch 'master' into merge3	2020-04-06 08:25:54 -04:00
chhylp123	87fc103e63	fix small bug	2020-04-06 02:03:34 -04:00
Heng Li	adbc65feda	r201: automatically adjust -N	2020-04-05 22:43:01 -04:00
Heng Li	3773610532	r200: reworked multi-thread for better efficiency	2020-04-05 16:18:14 -04:00
Heng Li	f0c53e9948	r192: estimate buffer memory	2020-04-05 11:17:12 -04:00
Heng Li	4e3c15ec83	r190: fixed an if_exact() bug ... caused by reverse complement again	2020-04-04 00:51:38 -04:00
Heng Li	dbe66d259d	r189: print statistics	2020-04-04 00:14:53 -04:00
Heng Li	69c32066d4	r188: reduced duplicated code	2020-04-03 23:53:43 -04:00
Heng Li	18b69f1a72	r187: reversed round in clear_opt()	2020-04-03 22:19:55 -04:00
Heng Li	76de054331	r186: fixed memory leaks when loading from disk	2020-04-03 20:35:47 -04:00
Heng Li	d529dcea3f	r183: reorganized the major workflow	2020-04-03 13:34:07 -04:00
Heng Li	968b4caef9	r181: limit the max number of chains	2020-04-02 21:55:00 -04:00