Heng Li
|
248158a3e1
|
Resolved #168: citing the manpage for cs
|
2018-05-30 11:03:16 -04:00 |
|
Heng Li
|
9f4309c376
|
r777: avoid skipping too many seeds
|
2018-05-11 10:25:18 -04:00 |
|
Heng Li
|
463f9309f9
|
Merge branch 'hot-fix' into fix-long-gap
|
2018-05-11 10:13:19 -04:00 |
|
Heng Li
|
abe989e355
|
the previous fix on int overflow is incomplete
|
2018-05-11 10:12:57 -04:00 |
|
Heng Li
|
881b4ca3a2
|
r774: Merge branch 'hot-fix' into fix-long-gap
|
2018-05-11 10:02:17 -04:00 |
|
Heng Li
|
10c6dd2551
|
r773: fixed an integer overflow
|
2018-05-11 10:01:23 -04:00 |
|
Heng Li
|
7ec6721c44
|
r772: option -Y not working
|
2018-05-11 10:00:11 -04:00 |
|
Heng Li
|
e61812ee55
|
reduced gap len to trigger bad seed filtering
|
2018-05-01 16:17:21 -04:00 |
|
Heng Li
|
734ac379bb
|
r770: matching N bases not working properly (#155)
|
2018-04-30 19:55:23 -04:00 |
|
Heng Li
|
759f8e4ac9
|
r769: filter out seeds breaking long gaps
|
2018-04-24 15:37:37 -04:00 |
|
Heng Li
|
aef7b0744c
|
r768: shortened preset; added dv tag (#25)
Also added asm20 to command line help (#151)
|
2018-04-24 12:48:54 -04:00 |
|
Heng Li
|
39f836eac8
|
r767: don't crash when there is no "cg" (#153)
|
2018-04-24 12:32:37 -04:00 |
|
Heng Li
|
cbeb86dad6
|
Merge remote-tracking branch 'origin/master'
|
2018-04-10 09:12:26 -04:00 |
|
Heng Li
|
372c90ceb5
|
r764: fixed incorrect inversion mapq (#148)
|
2018-04-10 09:11:49 -04:00 |
apregier
|
2e2e69107c
|
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 |
|
Heng Li
|
ee4cd089f7
|
r763: fine control long join flank len (#128)
|
2018-03-29 14:16:58 -04:00 |
|
Heng Li
|
2d7ec75d50
|
Release minimap2-2.10 (r761)
|
2018-03-27 11:45:44 -04:00 |
|
Heng Li
|
7938ed4893
|
fixed two mappy warnings
|
2018-03-26 15:12:54 -04:00 |
|
Heng Li
|
4740423afa
|
Merge remote-tracking branch 'origin/master'
|
2018-03-26 14:37:17 -04:00 |
|
Heng Li
|
1776311a9b
|
updated cookbook
|
2018-03-26 14:37:02 -04:00 |
|
Heng Li
|
c1a3e05cb0
|
Merge pull request #138 from zingdle/patch-1
Fix typo in README.md
|
2018-03-26 07:50:39 -04:00 |
zingdle
|
ecb6703d4a
|
Update README.md
Fix typo.
TD;DR -> TL;DR
|
2018-03-26 14:54:52 +08:00 |
|
Heng Li
|
0bf97a367b
|
r755: junceval to only evaluate chromosomes
|
2018-03-24 23:10:06 -04:00 |
|
Heng Li
|
1c504d72e4
|
r754: option to only change name
|
2018-03-23 12:27:11 -04:00 |
|
Heng Li
|
5ef9580b17
|
r753: change bandwidth in ava-ont to 2000bp
|
2018-03-23 10:15:23 -04:00 |
|
Heng Li
|
08bd2123b6
|
r752: option to copy comments to output (#136)
|
2018-03-23 10:04:33 -04:00 |
|
Heng Li
|
8766d286df
|
r751: optionally output MD (#118)
|
2018-03-22 14:15:33 -04:00 |
|
Heng Li
|
623b5d9d48
|
r750: check puts() return (#132 & #103)
|
2018-03-22 11:31:58 -04:00 |
|
Heng Li
|
18659118cd
|
r749: don't print version etc at low verbose
|
2018-03-22 11:10:55 -04:00 |
|
Heng Li
|
d1050f4eaf
|
r748: optionally to use system getopt() (#134)
|
2018-03-19 11:18:26 -04:00 |
|
Heng Li
|
b81d45510e
|
Revision v2
|
2018-03-16 11:18:06 -04:00 |
|
Heng Li
|
d135feb1a5
|
response to reviewers' comments, round 2
|
2018-03-15 21:59:57 -04:00 |
|
Heng Li
|
242ff4e91d
|
r745: junceval - recognize "-" as file name
|
2018-03-15 12:51:46 -04:00 |
|
Heng Li
|
7a0c1316ce
|
added more examples to cookbook
|
2018-03-12 22:24:22 -04:00 |
|
Heng Li
|
77ebd479f4
|
r743: added VCF output to "call"
|
2018-03-12 21:51:31 -04:00 |
|
Heng Li
|
e3f226a9d9
|
working on section "Full-Genome Alignment"
found an apparent bug in paftools.js call. To debug...
|
2018-03-12 16:12:18 -04:00 |
|
Heng Li
|
bdc615c1d4
|
r741: added --min-occ-floor to improve #107
|
2018-03-12 14:32:27 -04:00 |
|
Heng Li
|
ad1beaf255
|
backup; not finished
|
2018-03-12 13:20:25 -04:00 |
|
Heng Li
|
de0480ac5b
|
finished section "Read Overlap"
|
2018-03-12 13:05:51 -04:00 |
|
Heng Li
|
f2866533a8
|
finished "mapping genomic reads"
|
2018-03-12 12:50:21 -04:00 |
|
Heng Li
|
0173850ef0
|
don't use bullets - they are hard to read
|
2018-03-12 12:42:13 -04:00 |
|
Heng Li
|
acea3594fb
|
updated cookbook
|
2018-03-12 12:39:57 -04:00 |
|
Heng Li
|
f78a247749
|
Started to work on a cookbook
|
2018-03-12 12:00:44 -04:00 |
|
Heng Li
|
ccaf12e1a2
|
r734: removed debugging print in call()
|
2018-03-09 23:46:21 -05:00 |
|
Heng Li
|
96b132c97d
|
fixed a bug/typo in Aligner.seq() (#126)
|
2018-03-08 19:12:12 -05:00 |
|
Heng Li
|
70428ca3a8
|
speedup tag parsing for sam2paf
|
2018-03-02 10:17:55 -05:00 |
|
Heng Li
|
9aea79d621
|
faster tag parsing
|
2018-03-02 10:09:14 -05:00 |
|
Heng Li
|
1770988627
|
make calling work with sam2paf output
|
2018-03-02 10:03:06 -05:00 |
|
Heng Li
|
2bfdad34bb
|
minor cleanup to last commit
|
2018-03-02 01:07:37 -05:00 |
|
Heng Li
|
953766cedd
|
generate cs; not carefully tested
|
2018-03-02 00:14:55 -05:00 |