Heng Li
|
c57b59f02f
|
r845: log peak memory
|
2018-09-23 20:27:49 -04:00 |
Torsten Seemann
|
34be359e25
|
Add -s sample option for VCF output
|
2018-09-19 18:24:47 -04:00 |
|
Heng Li
|
8b12da8b0f
|
removed a useless dependency (not in repo)
|
2018-09-17 13:59:25 -04:00 |
|
Heng Li
|
c63a33904f
|
r836: fixed an integer overflow
Forgot this one.
|
2018-09-14 23:29:31 -04:00 |
|
Heng Li
|
70b0fede64
|
r835: improved help message. Resolved #232
|
2018-09-14 22:29:25 -04:00 |
|
Heng Li
|
0b681e51e7
|
Merge remote-tracking branch 'remotes/origin/master'
|
2018-09-14 22:22:20 -04:00 |
|
Heng Li
|
7d80d6de4a
|
r832: fixed outdated -L. Resolved #231 and #233
|
2018-09-14 22:21:33 -04:00 |
Chris Rands
|
791e89ce0f
|
PEP8 and other minor styles changes
|
2018-09-12 10:58:56 -04:00 |
|
Heng Li
|
98c48a1c45
|
Fixed wrong version links in the cookbook
|
2018-09-03 09:07:34 -04:00 |
|
Heng Li
|
63d397120a
|
removed getopt.c from MANIFEST
|
2018-09-01 21:30:46 -04:00 |
|
Heng Li
|
7998fe9906
|
r829: replaced musl's getopt with ketopt
|
2018-09-01 21:18:02 -04:00 |
|
Heng Li
|
3a119d606f
|
r828: --MD to support spliced alignment
|
2018-08-22 10:47:45 -04:00 |
|
Heng Li
|
a5eafb75f9
|
Release minimap2-2.12 (r827)
|
2018-08-06 12:44:39 -04:00 |
|
Heng Li
|
9a567e4b37
|
allow mappy to change scoring
|
2018-08-06 09:52:13 -04:00 |
|
Heng Li
|
8e606bcc06
|
added a `-C5` example to Getting Started
|
2018-08-06 09:08:33 -04:00 |
|
Heng Li
|
a1b7219b5d
|
explain added parameters
|
2018-08-05 21:32:05 -04:00 |
|
Heng Li
|
b0f39a1a61
|
r823: mappy to index a single sequence
|
2018-08-05 20:57:05 -04:00 |
|
Heng Li
|
5ab6538757
|
r822: added option --no-end-flt
|
2018-08-05 19:42:12 -04:00 |
|
Heng Li
|
b32296e18f
|
r821: fixed memory when -y is used
|
2018-07-31 15:14:37 -04:00 |
|
Heng Li
|
99ecdf7b5d
|
mappy to support arm64 (#203)
|
2018-07-24 23:53:02 -04:00 |
|
Heng Li
|
ff9917a1c4
|
r819: mappy to support cs/MD
|
2018-07-24 23:29:55 -04:00 |
Mark Bicknell
|
8c064a5f29
|
Fixed mm_idx_is_idx to return the correct result on Windows.
|
2018-07-17 09:16:33 -04:00 |
|
Heng Li
|
0e137670fc
|
Merge branch 'split'
|
2018-07-15 22:24:15 -04:00 |
|
Heng Li
|
395c8d678a
|
r815: fixed a memory leak
|
2018-07-15 22:11:32 -04:00 |
|
Heng Li
|
830da7fa27
|
r814: resumed versioning
|
2018-07-15 11:48:14 -04:00 |
|
Heng Li
|
a655cbef86
|
print SAM header; remove tmp files
|
2018-07-15 11:03:18 -04:00 |
|
Heng Li
|
4b707aac92
|
working with toy examples
|
2018-07-15 10:55:00 -04:00 |
|
Heng Li
|
951c0d1d35
|
apparently mm_append_cigar() wastes some memory
|
2018-07-14 23:47:44 -04:00 |
|
Heng Li
|
3545e35a42
|
pairing in the split-idx mode
|
2018-07-14 23:43:34 -04:00 |
|
Heng Li
|
f3417da838
|
bugfix: unmapped records are duplicated in output
|
2018-07-14 22:54:05 -04:00 |
|
Heng Li
|
e5277dbf5c
|
code backup
|
2018-07-14 22:52:36 -04:00 |
|
Heng Li
|
1a55227d5a
|
write hits to tmp files (unfinished)
|
2018-07-14 12:15:10 -04:00 |
|
Heng Li
|
5cfa621b2d
|
use unmapped records
|
2018-07-07 12:49:15 -05:00 |
|
Heng Li
|
a609a07f8c
|
optionally output unmapped query in PAF
|
2018-07-07 10:26:08 -05:00 |
|
Heng Li
|
bcf92b3c46
|
compute query coverage
|
2018-07-06 21:52:01 -05:00 |
|
Heng Li
|
097378ab90
|
reworked break point counting
|
2018-07-06 09:46:26 -04:00 |
|
Heng Li
|
10bbbe28c5
|
added asmstat
|
2018-07-05 13:22:32 -04:00 |
Hyeshik Chang
|
c92a6866f3
|
Release the GIL to allow native Python threading.
|
2018-07-05 08:00:27 -04:00 |
Maël Kerbiriou
|
6908dc59a5
|
--splice implied when searching for splicing sites on single strand
|
2018-07-05 07:41:26 -04:00 |
|
Heng Li
|
50dae10421
|
paftools call to show statistics on longer indels
|
2018-07-03 14:28:09 -04:00 |
|
Heng Li
|
0517972d02
|
Release minimap2-2.11 (r797)
|
2018-06-21 00:04:08 -04:00 |
|
Heng Li
|
d46e68e6ad
|
r796: don't use ssize_t
|
2018-06-20 12:45:27 -04:00 |
|
Heng Li
|
2584a4149a
|
r295: use -r2000 for ava-ont, NOT for ava-pb
|
2018-06-20 12:24:43 -04:00 |
|
Heng Li
|
66674afd09
|
r794: fixed a bug in seed filtering
|
2018-06-20 10:26:29 -04:00 |
|
Heng Li
|
e9ca0c9dab
|
added __version__; resolved #165
Not sure if this is the right way. Apparently working.
|
2018-06-19 15:40:26 -04:00 |
|
Heng Li
|
7e6e8ca73f
|
r792: fixed -Wextra warnings and resolved #184
|
2018-06-19 15:26:58 -04:00 |
Ilya Kolpakov
|
408e098859
|
fix deserialization of zero-length reference names
|
2018-06-19 14:46:05 -04:00 |
|
Ilya Kolpakov
|
57f37551f8
|
expose mm_idx_is_idx, mm_idx_load and mm_idx_dump
|
2018-06-19 14:46:05 -04:00 |
|
Ilya Kolpakov
|
4c66b689c3
|
fix serialization of empty names in mm_idx_dump
|
2018-06-19 14:46:05 -04:00 |
mvdbeek
|
1bde2cf076
|
Allow setting max_frag_len on a per alignment level
|
2018-06-19 14:39:30 -04:00 |