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663 Commits 11 Branches 54 Tags
06cf12a32a225eba400c641f5a062d0dda6ddc0d
Commit Graph
222 Commits
Author SHA1 Message Date
chhylp123 06cf12a32a r942 for temp release 2026-05-30 23:20:10 -04:00
chhylp123 bca2394b69 unsucessful hpc mark 2026-05-15 19:02:16 -04:00
chhylp123 7884b5ad88 regen_scb 2026-05-03 03:34:23 -04:00
chhylp123 ba8627fb23 phasing speedup 2026-04-11 22:33:18 -04:00
chhylp123 815d709fb9 fall back to avx2 2026-04-01 22:28:54 -04:00
chhylp123 d6ba102d42 r852 -> hybrid correction 2026-02-11 16:38:27 -05:00
chhylp123 3067771783 update for low coverge data 2024-12-16 06:25:31 -05:00
chhylp123 4889f1c6d8 fix high-coverage issue for ONT 2024-12-07 20:02:57 -05:00
chhylp123 184eb0a9fe fix the memory issue 2024-12-06 05:17:30 -05:00
chhylp123 676385cf8e ont simplex support 2024-11-27 13:27:13 -05:00
chhylp123 70fd9a0b1f keeping more telomeres 2024-05-06 04:02:20 -04:00
chhylp123 73dd5eeb5b gen_telo_end_t 2024-04-28 15:11:21 -04:00
chhylp123 358b090e20 fix scaf bugs 2024-04-27 07:58:49 -04:00
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 adeb2c603d trio-dual/bug for hic phasing 2023-05-31 14:54:50 -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 84e642d20d fix bubble on-the-fly 2023-04-13 10:16:14 -04:00
chhylp123 5df5892f33 update for rescuing missing contigs 2023-04-06 23:14:41 -04:00
chhylp123 86b7dd424a avoid misassemblies; better polyploidy graph 2023-03-22 12:23:53 -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 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 b55e4396d2 prt_dbg_gfa -> before transitive reduction 2023-02-17 11:00:15 -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 db2edc0ffb fix exit(1) for bin_only 2023-01-23 15:25:01 -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 0613b18af9 r493 ->HiC/UL/Trans 2023-01-11 20:38:45 -05:00
chhylp123 a674110b23 fixed het/hom node bugs 2022-12-08 03:07:14 -05:00
chhylp123 a3b72457f0 cleaner assembly graph 2022-12-06 09:52:00 -05:00
chhylp123 786f8bdff0 r465 2022-12-02 09:40:25 -05:00
chhylp123 fc76af1285 fixed gap filling with UL 2022-11-25 11:46:37 -05:00
chhylp123 152bae2dfb fix utg el bug 2022-11-17 12:18:40 -05:00
chhylp123 9831afaf26 code clean 2022-11-17 09:31:56 -05:00
chhylp123 2c7b164f11 tmp cache 2022-11-10 19:37:52 -05:00
chhylp123 46acc8a2f6 version with wrong realignment 2022-11-07 02:35:26 -05:00
chhylp123 612c1ab712 cuttoff before debugging 2022-11-05 09:03:23 -04:00
chhylp123 e66c003b65 cleaner graph 2022-11-01 21:44:13 -04:00
chhylp123 f4b6223fde cutoff-r426-avoid-tip 2022-10-31 15:18:52 -04:00
chhylp123 249bee7304 done contain clean 2022-10-27 17:05:46 -04:00
chhylp123 df3e0eeaa3 read extract 2022-10-19 13:23:25 -04:00
chhylp123 89e0d1aafa UL graph with graph cleaning 2022-08-02 15:48:16 -04:00