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593 Commits 11 Branches 54 Tags
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593 Commits

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Author SHA1 Message Date
chhylp123
61ceb3a4e1 fix bubble issue 2023-11-06 00:09:38 -05:00
chhylp123
4ca8951f9d fix bug for gen_contain_consensus_chain 2023-10-22 13:23:27 -04:00
chhylp123
281ae6ba89 add scaffolding 2023-10-10 12:40:29 -04:00
chhylp123
c7685e6f19 checkpoint for scaffolding 2023-09-15 12:58:34 -04:00
chhylp123
858b95a3bb disable multiple assertions 2023-08-17 19:58:35 -04:00
chhylp123
64091a76a5 fix filter_short_ulalignments 2023-07-19 19:11:37 -04:00
chhylp123
adeb2c603d trio-dual/bug for hic phasing 2023-05-31 14:54:50 -04:00
chhylp123
44475e2665 remove ksw2 from makefile 2023-05-12 20:57:11 -04:00
chhylp123
2c18ec30da fix memory leak of print_utg 2023-05-12 11:31:34 -04:00
chhylp123
18b649aadb fixed missing/false duplication for diploid asm 2023-04-17 19:58:00 -04:00
chhylp123
0efcc14499 fix chain spliting bug 2023-04-14 16:43:41 -04:00
chhylp123
84e642d20d fix bubble on-the-fly 2023-04-13 10:16:14 -04:00
chhylp123
7e855ba5e2 update README 2023-04-06 23:16:59 -04:00
chhylp123
5df5892f33 update for rescuing missing contigs 2023-04-06 23:14:41 -04:00
chhylp123
503cd0f7cc 0.19.2->0.19.3 2023-03-22 12:25:39 -04:00
chhylp123
86b7dd424a avoid misassemblies; better polyploidy graph 2023-03-22 12:23:53 -04:00
chhylp123
d4773a497f disable postjoin for the ul assembly 2023-03-13 15:43:22 -04:00
chhylp123
f67faa9c34 path-max and path-min to avoid misassemblies 2023-03-13 11:13:57 -04:00
chhylp123
3407c7029e coverage adjustment for polyploidy 2023-03-12 17:02:29 -04:00
chhylp123
2218bac8aa clean output 2023-03-10 23:42:29 -05:00
chhylp123
b533067835 enable dbg-ovec 2023-03-10 23:30:24 -05:00
chhylp123
384b721d84 clean output 2023-03-10 15:46:23 -05:00
chhylp123
8b79a3f22e disable function for tangles with low-coverage ul 2023-03-10 15:34:10 -05:00
chhylp123
af4be8ca1a disable integer correction; disable contain dedup 2023-03-10 09:12:07 -05:00
chhylp123
85c643e85d clean contained read; fixed for deep_graph_clean 2023-03-07 15:28:24 -05:00
chhylp123
a0f2f70d91 better resolution for complex regions 2023-02-27 09:35:50 -05:00
chhylp123
04f660fd8c bug fixed for mask calculation 2023-02-24 00:36:52 -05:00
chhylp123
2b4b4f29e0 r525 2023-02-21 20:22:56 -05:00
chhylp123
8ea2d5a622 r523-phasing-across chains 2023-02-21 15:44:45 -05:00
chhylp123
7d5c793109 additional cluster for phasing 2023-02-20 23:38:27 -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
fc598d71f6 0.18.6 -> 0.18.7 2023-02-16 12:16:24 -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
1166b92eb4 r502->additional alignment 2023-01-25 09:39:41 -05:00
chhylp123
78ef43ce8e r500 2023-01-23 15:28:43 -05:00
chhylp123
dc07898f68 Merge branch 'hifiasm_dev_debug' of https://github.com/chhylp123/hifiasm into hifiasm_dev_debug 2023-01-23 15:25:37 -05:00
chhylp123
db2edc0ffb fix exit(1) for bin_only 2023-01-23 15:25:01 -05:00
chhylp123
8ff5a1370d Merge pull request #348 from chhylp123/master 
auto merge
 2023-01-17 10:27:58 -05:00
chhylp123
f054b11e0e Merge pull request #382 from chhylp123/hifiasm_dev_debug 
Hifiasm dev debug
 2023-01-17 04:53:24 -05:00
chhylp123
25d6857d44 r499->false duplications 2023-01-17 04:49:56 -05:00
chhylp123
46391eba26 fix bubble popping bugs 2023-01-15 22:29:20 -05:00
chhylp123
2969af129d Merge pull request #380 from chhylp123/hifiasm_dev_debug 
Hifiasm dev debug
0.18.4 		2023-01-12 01:23:04 -05:00
chhylp123
2bf5119bb5 update help information 2023-01-12 01:22:34 -05:00
chhylp123
197cd4d77e 0.18.3 -> 0.18.4 2023-01-12 00:22:23 -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
34948a093c Merge pull request #368 from chhylp123/hifiasm_dev_debug 
fixed het/hom node bugs
0.18.2 		2022-12-08 03:07:43 -05:00
chhylp123
a674110b23 fixed het/hom node bugs 2022-12-08 03:07:14 -05:00