Heng Li
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ef09ccf104
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Release minimap2-2.19 (r1055)
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2021-05-26 21:01:03 -04:00 |
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Heng Li
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f31705bb4a
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r1053: made junceval work with PAF
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2021-05-26 11:54:46 -04:00 |
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Heng Li
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cd9ccfa069
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r1022: check INDEL lengths in simple cases
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2021-04-11 22:07:00 -04:00 |
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Heng Li
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86b716448c
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larger window size for longer INDELs
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2021-04-11 16:08:29 -04:00 |
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Heng Li
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9ab95be1bb
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update END when it is not there
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2021-04-11 12:59:21 -04:00 |
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Heng Li
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b51e859945
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make sure ins/del match
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2021-04-11 11:47:14 -04:00 |
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Heng Li
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a9037dc16c
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r1018: scripts for SV evaluation
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2021-04-11 01:08:17 -04:00 |
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Heng Li
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b6ff332de1
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Release minimap2-2.18 (r1015)
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2021-04-09 13:33:34 -04:00 |
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Heng Li
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1b0bb7b0ba
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require overlap ratio when considering centromere
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2021-03-11 19:11:44 -05:00 |
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Heng Li
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ecbc399fa2
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improved sveval
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2021-03-06 19:44:13 -05:00 |
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Heng Li
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4dfd495cc2
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added sveval
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2021-02-15 14:49:36 -05:00 |
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Heng Li
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194b457e79
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option to print errors only
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2021-02-07 12:58:03 -05:00 |
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Heng Li
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75c8933511
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evaluate large-scale misjoins
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2021-02-07 12:34:13 -05:00 |
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Heng Li
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1025993469
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print number of errors on each read
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2021-01-29 14:08:21 -05:00 |
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Heng Li
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a3253d1a6b
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added a command for simple VCF statistics
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2021-01-14 12:24:38 -05:00 |
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Heng Li
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29f67a1666
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r982: more accurate sum; output errors
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2020-04-14 16:18:53 -04:00 |
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Heng Li
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f10dff78dc
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r981: asmgene to check duplicate genes
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2020-04-14 15:52:36 -04:00 |
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Heng Li
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50775362bb
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r980: support auNGA
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2020-04-10 21:36:59 -04:00 |
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Heng Li
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0a5e386359
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r979: fixed asmgene wrong report. Resolves #581.
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2020-04-06 19:57:15 -04:00 |
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Heng Li
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e2451e497a
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r975: asmstat without CIGAR/NM
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2020-03-22 19:16:43 -04:00 |
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Heng Li
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58c2251b18
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compatibility with GenBank GTP (resolves $422)
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2019-06-11 09:16:03 -04:00 |
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Heng Li
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7bc87b4175
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Release minimap2-2.17 (r941)
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2019-05-04 23:49:17 -04:00 |
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Heng Li
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f64e426a5a
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r933: resume versioning
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2019-04-28 17:05:37 -04:00 |
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Heng Li
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cdc730d573
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gff2bed to output junction BED
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2019-04-28 16:47:12 -04:00 |
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Heng Li
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6b391e3373
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Release minimap2-2.16 (r922)
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2019-02-28 15:49:24 -05:00 |
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Heng Li
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55e39c2d30
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r921: output unmapped reads in full PAF
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2019-02-27 15:03:19 -05:00 |
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Heng Li
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19208fb06b
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r916: support long cs in sam-to-paf conversion
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2019-02-17 09:35:23 -05:00 |
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Heng Li
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30abcf3cf9
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r907: copy tag "cs" in sam2paf
Resolves #310
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2019-01-13 17:52:31 -05:00 |
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Heng Li
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c404f49569
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Release minimap2-2.15 (r905)
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2019-01-10 12:34:45 -05:00 |
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Heng Li
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5b2fdfff9c
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r895: option in asmgene to count autosomal only
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2018-12-14 10:36:47 -05:00 |
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Heng Li
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eef1cee9b7
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r893: added paftools.js vcfpair
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2018-12-01 18:53:03 -05:00 |
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Heng Li
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62bbadf668
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r887: fixed a bug in asmgene
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2018-11-11 21:35:19 -05:00 |
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Heng Li
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cdaf46665a
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r885: compute dup with asmstat
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2018-11-07 00:26:05 -05:00 |
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Heng Li
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59f23f7579
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Release minimap2-2.14 (r883)
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2018-11-06 00:03:16 -05:00 |
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Heng Li
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09e089c3dc
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r872: choose the longest isoform
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2018-11-04 23:48:50 -05:00 |
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Heng Li
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e46cbb7d84
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r871: print erroneous genes
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2018-11-04 20:37:06 -05:00 |
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Heng Li
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57ec73ec6c
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r870: separate <50% and <10%
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2018-11-04 19:31:25 -05:00 |
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Heng Li
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9e27575387
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r869: classify incomplete genes
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2018-11-04 19:21:55 -05:00 |
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Heng Li
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b4ad8d8bf0
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added asmgene
improvements coming; not made public yet
|
2018-11-04 17:24:05 -05:00 |
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Heng Li
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e315b9fada
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hidden options to control bp calculation
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2018-11-04 16:36:04 -05:00 |
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Heng Li
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5d5d392c02
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Release minimap2-2.13 (r850)
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2018-10-11 13:18:31 -04:00 |
Torsten Seemann
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34be359e25
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Add -s sample option for VCF output
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2018-09-19 18:24:47 -04:00 |
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Heng Li
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5cfa621b2d
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use unmapped records
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2018-07-07 12:49:15 -05:00 |
|
Heng Li
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bcf92b3c46
|
compute query coverage
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2018-07-06 21:52:01 -05:00 |
|
Heng Li
|
097378ab90
|
reworked break point counting
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2018-07-06 09:46:26 -04:00 |
|
Heng Li
|
10bbbe28c5
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added asmstat
|
2018-07-05 13:22:32 -04:00 |
|
Heng Li
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50dae10421
|
paftools call to show statistics on longer indels
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2018-07-03 14:28:09 -04:00 |
|
Heng Li
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39f836eac8
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r767: don't crash when there is no "cg" (#153)
|
2018-04-24 12:32:37 -04:00 |
apregier
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2e2e69107c
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Small bugfix for paftools.js
The bug resulted in the wrong coverage being printed in some cases.
|
2018-04-04 16:29:54 -04:00 |
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Heng Li
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0bf97a367b
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r755: junceval to only evaluate chromosomes
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2018-03-24 23:10:06 -04:00 |