43 Commits

Author	SHA1	Message	Date
chhylp123	e8b18560a5	0.20.0-r631	2024-10-09 17:09:10 -04:00
chhylp123	d5f8a8a6c0	new ec model	2024-06-30 19:53:51 -04:00
chhylp123	4ca8951f9d	fix bug for gen_contain_consensus_chain	2023-10-22 13:23:27 -04:00
chhylp123	25d6857d44	r499->false duplications	2023-01-17 04:49:56 -05:00
chhylp123	8138941a26	new realignment	2022-05-03 00:59:24 -04:00
chhylp123	9c79bdfe7f	UL_gdp	2022-04-13 16:15:03 -04:00
chhylp123	0ce5a7ba5b	integration/print het sites	2022-01-17 18:29:48 -05:00
chhylp123	8a0ec3d575	change ug extraction	2021-12-12 20:59:48 -05:00
chhylp123	908b4f3786	bug fix	2021-10-10 14:47:16 -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	ab80851b94	mempcpy -> memcpy	2021-09-12 17:43:43 -04:00
chhylp123	809ca18dda	r373	2021-09-10 17:17:44 -04:00
chhylp123	17b5cb21d3	tmp macro	2021-08-30 09:30:48 -04:00
chhylp123	e230b3a55f	0.16.0 release	2021-08-22 21:58:00 -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	e774a83be2	debug mbg	2021-05-30 09:02:25 -04:00
Heng Li	8e98fb2276	Merge branch 'master' into dev-lh3	2021-03-02 19:27:44 -05:00
chhylp123	fda13cb0e4	update -z	2021-02-02 12:45:50 -05:00
Heng Li	da672118e5	r330: unimap heuristic for mz sampling	2021-01-21 11:05:37 -05:00
Heng Li	f37c4e29fa	a bit refactoring for the next change	2020-10-29 18:24:47 -04:00
Heng Li	ef8c047559	removed unused ha_sketch	2020-10-29 11:28:43 -04:00
Heng Li	eddb8173da	added --min-hist-cnt for #49	2020-10-26 16:28:30 -04:00
chhylp123	89fcb35a64	for debugging	2020-10-11 14:32:33 -04:00
chhylp123	03cf0d475c	save bfore multiple overlaps	2020-08-23 08:46:33 -04:00
chhylp123	a25c37ed89	update k-mer peaks	2020-07-07 13:20:25 -04:00
Heng Li	f32bfc904a	r215: prepare for list-based binning	2020-04-10 00:12:19 -04:00
Heng Li	adbc65feda	r201: automatically adjust -N	2020-04-05 22:43:01 -04:00
Heng Li	f0c53e9948	r192: estimate buffer memory	2020-04-05 11:17:12 -04:00
Heng Li	968b4caef9	r181: limit the max number of chains	2020-04-02 21:55:00 -04:00
Heng Li	b7e5d1c4d3	r176: enabled the minimap2 chaining heuristic	2020-04-01 22:06:14 -04:00
Heng Li	30a70bc307	fixed wrong coordinate	2020-03-27 13:45:09 -04:00
Heng Li	1bb174a04e	fixed missing read names ... Overlapping not working yet (now confirmed)	2020-03-27 12:51:08 -04:00
Heng Li	293f4b6b58	to replace get_new_candidates(); UNFINISHED!	2020-03-27 11:21:08 -04:00
Heng Li	7271c106e4	reverted to the older k_mer_hit definition	2020-03-27 10:40:31 -04:00
Heng Li	10ed8b36ec	implemented ha_pt_get()	2020-03-26 23:00:00 -04:00
Heng Li	79bc553da6	removed hifiasm hash table index	2020-03-26 16:10:01 -04:00
Heng Li	387d6336d8	read from read store	2020-03-26 15:17:49 -04:00
Heng Li	0dd927bdce	write to hifiasm read store	2020-03-26 14:23:17 -04:00
Heng Li	ff8194d291	position indexing apparently working	2020-03-25 23:44:15 -04:00
Heng Li	716713685c	renamed files for code cleanup	2020-03-25 19:59:17 -04:00