Commits · de6adbf7e7c9b1ab9f056aeb244313785aefe769 · github_fork / Chromap

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Feb 08, 2021
- Fix a bug of not using proper direction reads. Try to use bandedtraceback... · de6adbf7
  Li authored Feb 08, 2021
  de6adbf7
Feb 06, 2021
- Fix an issue of assigning wrong second_min_error. Allow gap beginning in more... · 80cf4370
  Li authored Feb 05, 2021
  80cf4370
Feb 04, 2021
- Fix a bug of misplacing two lines · 34a6ec8d
  Li authored Feb 04, 2021
  
  34a6ec8d
Feb 02, 2021
- Do not use mapq_pe when split alignment · e5c6c213
  Li authored Feb 01, 2021
  
  e5c6c213
Feb 01, 2021
- Fix a bug of adjusting read end for pairs format · 075caeb8
  Li authored Jan 31, 2021
  
  075caeb8
Jan 31, 2021
- Support the F1F2,R1R2 case for split alignment. Fix several bugs regarding... · 690d97d0
  Li authored Jan 30, 2021
  690d97d0
Jan 28, 2021
- Use ksw for pairs format mapping · 8f3f1fc2
  Li authored Jan 28, 2021
  
  8f3f1fc2
- Add the format pairs for hic data analysis · e4645bae
  Li authored Jan 28, 2021
  
  e4645bae
Jan 26, 2021
- Support paired-end mode for SAM format. Fix several potential bugs. · 63e039ce
  Li authored Jan 26, 2021
  
  63e039ce
- Fix a possible bug of using out range reference sequence · 4024369b
  Li authored Jan 25, 2021
  
  4024369b
- Prepare to add the support for paired-end split alignment · 2fe280ee
  Li authored Jan 25, 2021
  
  2fe280ee
Jan 25, 2021
- Fix a bug of using wrong map_end_position · 826c238d
  Li authored Jan 25, 2021
  
  826c238d
- 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

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Commits · de6adbf7e7c9b1ab9f056aeb244313785aefe769