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Author	SHA1	Message	Date
Heng Li	eddbc61952	r254: added --ex-list and --ex-iter	2020-06-03 20:46:34 -04:00
Heng Li	e247c5f042	r253: Merge branch 'master' into dev-lh3	2020-05-23 21:43:22 -04:00
chhylp123	d36e1e7782	fixed bugs for trio-binning v0.7	2020-05-17 11:53:12 -04:00
Heng Li	f6ea45b58a	r251: always keep the best hits	2020-05-08 00:40:53 -04:00
Heng Li	e544360043	r250: fixed a bug in selecting top chains	2020-05-07 14:49:49 -04:00
Heng Li	3364a29b87	r249: make max overlap error rate CLI options	2020-05-06 01:16:50 -04:00
Heng Li	331e437c72	r248: contained reads not handled properly	2020-05-03 00:27:53 -04:00
chhylp123	7f6725ead3	expose purge_dups v0.6	2020-04-18 00:45:47 -04:00
Heng Li	85c57fd087	r246: made purge_dups optional for trio binning	2020-04-15 23:57:18 -04:00
chhylp123	57e979ca17	update for v0.5.0 v0.5	2020-04-14 00:10:58 -04:00
Heng Li	a06ee39433	r244: use 3 rounds of error correction by default	2020-04-13 19:51:15 -04:00
Heng Li	8907e9c64f	r243: Merge branch 'master' into dev-lh3	2020-04-13 15:18:21 -04:00
Heng Li	946a0f4115	r238: got rid of LIS chaining	2020-04-13 14:44:10 -04:00
Heng Li	b333addb6c	r237: fall back to DP chaining more often	2020-04-13 08:39:05 -04:00
chhylp123	4216384df6	update README v0.4	2020-04-12 20:59:49 -04:00
chhylp123	3120db1340	update README	2020-04-12 20:53:18 -04:00
chhylp123	69e8282b9a	update README	2020-04-12 20:51:18 -04:00
chhylp123	b93baa3cbd	update README	2020-04-12 20:46:54 -04:00
Heng Li	cc166c8ff5	r235: clarified option -f	2020-04-12 19:42:02 -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	2d985569f1	Merge branch 'master' into dev-lh3	2020-04-12 18:57:42 -04:00
chhylp123	57b16e9e1f	fix warning	2020-04-12 17:46:30 -04:00
chhylp123	b245e9a760	fix warning	2020-04-12 17:46:20 -04:00
Heng Li	2c4de3a326	r230: the first anchor score was not adjusted	2020-04-12 10:39:42 -04:00
Heng Li	75a89c214d	r229: LIS score is still not exactly right	2020-04-12 10:19:28 -04:00
Heng Li	22b681b830	r228: resolved a compiler warning	2020-04-12 09:56:50 -04:00
Heng Li	4d7600361c	r226b: prefer unique anchors	2020-04-11 22:28:21 -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	c710c6ea48	r221: sync with hifiasm parameter ... Probably has no practical effect	2020-04-10 21:49:01 -04:00
Heng Li	c37ea00d6a	r220: resumed versioning	2020-04-10 19:12:32 -04:00
Heng Li	ad1b79a6bb	Merge branch 'flt-p' into dev-lh3	2020-04-10 14:03:44 -04:00
chhylp123	943b6947cb	update purge_dup by LIS	2020-04-10 13:58:36 -04:00
Heng Li	22b2e1e9e1	r217: fixed a bug in LIS chaining score ... Also fall back to DP chaining more often	2020-04-10 13:25:25 -04:00
Heng Li	15591c9038	improve documentation	2020-04-10 11:04:35 -04:00
Heng Li	71328f7423	r215: binning with external list (NOT TESTED!!)	2020-04-10 01:06:43 -04:00
Heng Li	f32bfc904a	r215: prepare for list-based binning	2020-04-10 00:12:19 -04:00
Heng Li	7a35bd7fcc	r213: renamed trio binning output files	2020-04-09 20:40:01 -04:00
Heng Li	c3f032da37	r212: LIS chaining was not working	2020-04-09 10:43:37 -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	8efcdefcaf	r207: multiple input files were not working	2020-04-07 12:40:10 -04:00
chhylp123	9cc563c7c6	do hap alignment in parallel	2020-04-07 11:18:28 -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
Heng Li	7f580850e8	Merge branch 'master' of github.com:chhylp123/hifiasm	2020-04-06 08:25:21 -04:00