Commits · 50e87713148063448ac504dada4e2dcf7f731018 · github_fork / Chromap

Browse files

Jan 25, 2021
- Support the split alignment starting with gap · 50e87713
  Li authored Jan 24, 2021
  
  50e87713
- Merge branch 'li_dev' of https://github.com/haowenz/chromap into li_dev · 93366593
  Li authored Jan 24, 2021
  
  93366593
Jan 24, 2021
- Merge branch 'li_dev' of https://github.com/haowenz/chromap into li_dev · d1e8d108
  Li authored Jan 24, 2021
  
  d1e8d108
- Fix cigar and position bugs · d5836636
  Haowen Zhang authored Jan 17, 2021
  
  d5836636
- Add MD tag for debug · b7354d2a
  Haowen Zhang authored Jan 17, 2021
  
  b7354d2a
- Fix some bugs for split alignments and get ready for a big change · 30026dfb
  Haowen Zhang authored Jan 16, 2021
  
  30026dfb
- Fix bugs in generating SAM · 1c5ab2a1
  Haowen Zhang authored Jan 14, 2021
  
  1c5ab2a1
- A painful implementation of split alignment with ed · d552d9ab
  Haowen Zhang authored Jan 12, 2021
  
  d552d9ab
- Generate SAM with ksw for single end read mapping · 053df9bb
  Haowen Zhang authored Jan 11, 2021
  
  053df9bb
- Formatting debug output · 68db07b4
  Haowen Zhang authored Dec 15, 2020
  
  68db07b4
Jan 18, 2021
- Add SAM header · f85025ae
  Haowen Zhang authored Jan 18, 2021
  
  f85025ae
- Fix cigar and position bugs · c3f8e555
  Haowen Zhang authored Jan 17, 2021
  
  c3f8e555
- Add MD tag for debug · 9858315d
  Haowen Zhang authored Jan 17, 2021
  
  9858315d
Jan 17, 2021
- Fix some bugs for split alignments and get ready for a big change · b62de826
  Haowen Zhang authored Jan 16, 2021
  
  b62de826
Jan 15, 2021
- Fix bugs in generating SAM · 4ad9bf79
  Haowen Zhang authored Jan 14, 2021
  
  4ad9bf79
Jan 12, 2021
- A painful implementation of split alignment with ed · 84bba39b
  Haowen Zhang authored Jan 12, 2021
  
  84bba39b
- Merge pull request #1 from haowenz/sam-output · 85817863
  Haowen Zhang authored Jan 11, 2021
  85817863
- Generate SAM with ksw for single end read mapping · 712b48a8
  Haowen Zhang authored Jan 11, 2021
  
  712b48a8
Dec 16, 2020
- Formatting debug output · 3ea11d4f
  Haowen Zhang authored Dec 15, 2020
  
  3ea11d4f
Nov 25, 2020
- Tune parameters · df39e2a9
  Haowen Zhang authored Nov 25, 2020
  
  df39e2a9
Nov 19, 2020
- Avoid too many supplement operations · ccd90a8d
  Li authored Nov 18, 2020
  
  ccd90a8d
Nov 18, 2020
- Merge branch 'li_dev' · bfae352b
  Haowen Zhang authored Nov 18, 2020
  bfae352b
- Supplement more · 26d51a3c
  Haowen Zhang authored Nov 18, 2020
  
  26d51a3c
- Do not supplement if too many best mates. · d37ad5da
  Li authored Nov 17, 2020
  
  d37ad5da
- Limit the supplement of best candidates · ab48f22d
  Haowen Zhang authored Nov 17, 2020
  
  ab48f22d
- Avoid repeated candidate add in supplementary · f0db86e2
  Li authored Nov 17, 2020
  
  f0db86e2
- Get back singletons · 93a80914
  Haowen Zhang authored Nov 17, 2020
  
  93a80914
- Fix multiple bugs · b1120d68
  Haowen Zhang authored Nov 17, 2020
  
  b1120d68
Nov 10, 2020
- Merge branch 'master' into refactor · 31a02b34
  Haowen Zhang authored Nov 10, 2020
  
  31a02b34
- Code refactor and same results · da883d90
  Haowen Zhang authored Nov 10, 2020
  
  da883d90
Nov 08, 2020
- Reduce the memory usage of cache. Fix an issue of a situation similar to palindrome. · 67b62cd5
  Li authored Nov 08, 2020
  
  67b62cd5
Oct 12, 2020
- Merge remote-tracking branch 'origin/li_dev' · 5c533895
  Haowen Zhang authored Oct 11, 2020
  5c533895
Sep 16, 2020
- Tune MAPQ · 9a3b3eb0
  Haowen Zhang authored Sep 15, 2020
  
  9a3b3eb0
- Reduce the stored history size · 6d71babd
  Li authored Sep 15, 2020
  
  6d71babd
Sep 09, 2020
- Improve barcode correction · ac2692de
  Haowen Zhang authored Sep 09, 2020
  
  ac2692de
- Don't use mapq to update candidate count · 4a00cfa5
  Haowen Zhang authored Sep 08, 2020
  
  4a00cfa5
Sep 08, 2020
- Fix an issue of underflowing cause heap sort failure · ef049267
  Li authored Sep 08, 2020
  
  ef049267
- Fix several issues with computing repetitive_seed_length · 8419f917
  Li authored Sep 07, 2020
  
  8419f917
- Better handling the coordinate when there is tandem repeats · 624b80dc
  Li authored Sep 07, 2020
  
  624b80dc
Sep 05, 2020
- Do not trigger repetitive second round if there are too few minimizers to start with · 05a446c7
  Li authored Sep 04, 2020
  
  05a446c7

Admin message

Commits · 50e87713148063448ac504dada4e2dcf7f731018