Repository navigation

Commits

History for

onavx2

Commits on May 27, 2026
- r352: heuristic to lower bs-seq mapq
  lh3
  committed
  2757adb
Commits on May 26, 2026
- in the meth mode, split at disallowed mismatches
  lh3
  committed
  0f53506
Commits on May 10, 2026
- r318: revert; also disable pairing in ex-batch
  lh3
  committed
  20ed35f
- a failed experiment; will revert soon
  lh3
  committed
  a04eb42
- r316: move meth conversion into inner functions
  lh3
  committed
  1496158
Commits on May 8, 2026
- wip: base alignment works for tiny test dataset
  lh3
  committed
  1c58d90
- wip: --meth chaining done on tiny test datasets
  lh3
  committed
  cb74f4c
- wip: implement meth anchor filtering in process_batch
  
  lh3
  and
  claude
  committed
  d50b37b
- wip: add is_meth param to mb_idx_load, rename ex-sgl to ex-one
  
  lh3
  and
  claude
  committed
  7f008a1
Commits on May 3, 2026
- r285: added mb_map_batch() for batch alignment
  
  lh3
  and
  claude
  committed
  3f9fb44
- r284: finished the simple API
  lh3
  committed
  b119f58
Commits on May 1, 2026
- feat(sam): add MC and MQ tags to PE SAM output
  nh13
  committed
  d7168f1
Commits on Apr 26, 2026
- r270: fixed unintended chain sorting
  lh3
  committed
  74f77fb
Commits on Apr 19, 2026
- r259: mix short- and long-read mapq
  lh3
  committed
  cf61e30
Commits on Apr 17, 2026
- r250: implement -5; testing on Hi-C needed
  lh3
  committed
  0c2e3dd
Commits on Apr 15, 2026
- r246: ported mm2 part for recal dp_max
  lh3
  committed
  a024b67
Commits on Apr 12, 2026
- re-chaining: fix best-chain selection and related fixes
  
  lh3
  and
  claude
  committed
  6b11c1d
Commits on Apr 11, 2026
- set is_sr based on read length
  lh3
  committed
  9cd0f2c
Commits on Apr 10, 2026
- removed MB_SEED_SELF
  lh3
  committed
  11da67c
Commits on Apr 6, 2026
- use unified format API for output
  lh3
  committed
  4af03af
- sam header and read group
  lh3
  committed
  4ec2d62
- prepare for SAM output
  lh3
  committed
  c6f8488
- support --MD
  lh3
  committed
  9cbda7e
Commits on Apr 5, 2026
- cleanup PAF output (unifinished)
  lh3
  committed
  9259c95
- write cs/ds tag; not tested
  lh3
  committed
  f901352
Commits on Feb 17, 2026
- moved matrix gen to ksw2.h
  lh3
  committed
  d3a2cce
Commits on Feb 9, 2026
- r192: option to debug anchor positions
  lh3
  committed
  c3ec3e5
Commits on Jan 26, 2026
- fixed a bug that removes rescued hits
  lh3
  committed
  565cf3a
Commits on Jan 25, 2026
- mate rescue working, though slow
  lh3
  committed
  ea7812f
- fixed a bug in is_rev and is_larger
  lh3
  committed
  ef7cc9f
- call mb_pair() in map-main; again not tested
  lh3
  committed
  d5cb3a2
- backup
  lh3
  committed
  b4fc4ff
Commits on Jan 24, 2026
- PE distance from 5'-end of reads
  lh3
  committed
  8d7ad8a
- r168: collect PE stats, ported from bwa
  lh3
  committed
  ae22d73
Commits on Jan 20, 2026
- r166: removed chain_skip_scale
  lh3
  committed
  fc172dc

Breadcrumbs

User selector

Datepicker

Commit history

Commits on May 27, 2026

Commits on May 26, 2026

Commits on May 10, 2026

Commits on May 8, 2026

Commits on May 3, 2026

Commits on May 1, 2026

Commits on Apr 26, 2026

Commits on Apr 19, 2026

Commits on Apr 17, 2026

Commits on Apr 15, 2026

Commits on Apr 12, 2026

Commits on Apr 11, 2026

Commits on Apr 10, 2026

Commits on Apr 6, 2026

Commits on Apr 5, 2026

Commits on Feb 17, 2026

Commits on Feb 9, 2026

Commits on Jan 26, 2026

Commits on Jan 25, 2026

Commits on Jan 24, 2026

Commits on Jan 20, 2026