Commits · 9b5a3126c520ce8516bd31cd8fab90a08e120e7f · github_fork / Chromap

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Jun 19, 2020
- Allowing shifted read with same minimizers in cache. Handle paired-end case · 9b5a3126
  Li authored Jun 19, 2020
  
  9b5a3126
- Preliminary implementaion of minimizer cache · e9a08938
  Li authored Jun 19, 2020
  
  e9a08938
Jun 12, 2020
- Fix a typo in function name · ecf36897
  Li authored Jun 11, 2020
  
  ecf36897
Jun 09, 2020
- Merge close candidates · 66adea22
  Haowen Zhang authored Jun 08, 2020
  
  66adea22
- SIMD alignment for e>7 · 4c63cd30
  Haowen Zhang authored Jun 08, 2020
  
  4c63cd30
Jun 08, 2020
- Fix alignment at the beginning · 74f28014
  Haowen Zhang authored Jun 07, 2020
  
  74f28014
- SIMD alignment · 9ec38716
  Haowen Zhang authored Jun 07, 2020
  
  9ec38716
Jun 02, 2020
- Change default parameters and hide some features · 43eb51f7
  Haowen Zhang authored Jun 02, 2020
  
  43eb51f7
- Fix alignment issue at the end of seq · e87c4cc8
  Haowen Zhang authored Jun 01, 2020
  
  e87c4cc8
- Fix a bug in parameter checking · 1f4ae0d6
  Haowen Zhang authored Jun 01, 2020
  
  1f4ae0d6
May 27, 2020
- Output feature matrix files · 10b37bf3
  Haowen Zhang authored May 27, 2020
  
  10b37bf3
May 26, 2020
- Output barcode stats · 964f9814
  Haowen Zhang authored May 25, 2020
  
  964f9814
May 20, 2020
- Support barcode correction · b6eaf37f
  Haowen Zhang authored May 20, 2020
  
  b6eaf37f
Feb 28, 2020
- Fix a warning caused by the lack of string format · a236c59b
  Haowen Zhang authored Feb 28, 2020
  
  a236c59b
- Fix linking problem · b42ac44b
  Haowen Zhang authored Feb 28, 2020
  
  b42ac44b
Feb 23, 2020
- Completely separate unique mapping and MAPQ filter · ccfc5109
  Haowen Zhang authored Feb 22, 2020
  
  ccfc5109
Feb 20, 2020
- use a driver class to simplify main · 89d61ef3
  Haowen Zhang authored Feb 20, 2020
  
  89d61ef3
- separate unique mapping only and mapq threshold · 69f9fa00
  Haowen Zhang authored Feb 19, 2020
  
  69f9fa00
Feb 07, 2020
- add argument types · b89a90a5
  Haowen Zhang authored Feb 06, 2020
  
  b89a90a5
- group arguments · cf0d4aa0
  Haowen Zhang authored Feb 06, 2020
  
  cf0d4aa0
- update argument parser · e4b14754
  Haowen Zhang authored Feb 06, 2020
  
  e4b14754
Jan 11, 2020
- add ksw · 0f275fe4
  Haowen Zhang authored Jan 10, 2020
  
  0f275fe4
Dec 12, 2019
- improve mapq and add recalibration · 00acdedd
  Haowen Zhang authored Dec 12, 2019
  
  00acdedd
- random kmer order on both strands · 3e5b6171
  Haowen Zhang authored Dec 12, 2019
  
  3e5b6171
Nov 19, 2019
- fixed a bug in saving index · 3e80208c
  Haowen Zhang authored Nov 18, 2019
  
  3e80208c
Nov 18, 2019
- implement my own IITree and fix an overflow bug · 5129e6fc
  Haowen Zhang authored Nov 18, 2019
  
  5129e6fc
Nov 17, 2019
- make allocation distance as a parameter · 10aa6e24
  Haowen Zhang authored Nov 16, 2019
  
  10aa6e24
Nov 14, 2019
- output in BED for single-cell data · 59fb66ac
  Haowen Zhang authored Nov 13, 2019
  
  59fb66ac
Nov 02, 2019
- implement multi-thread single-end read mapping · cf9ac497
  Haowen Zhang authored Nov 02, 2019
  
  cf9ac497
Oct 30, 2019
- refactor code · 480fa351
  Haowen Zhang authored Oct 30, 2019
  
  480fa351
- implement Tn5 shift · 661da43a
  Haowen Zhang authored Oct 29, 2019
  
  661da43a
- refactor code and support output format selection · 7ba010ee
  Haowen Zhang authored Oct 29, 2019
  
  7ba010ee
Oct 26, 2019
- refactor code and make results reproducible · 0616aeac
  Haowen Zhang authored Oct 25, 2019
  
  0616aeac
Oct 25, 2019
- initial commit · 4e401aef
  Haowen Zhang authored Oct 25, 2019
  
  4e401aef
- Initial commit · 552f2c95
  Haowen Zhang authored Oct 24, 2019
  
  552f2c95

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Commits · 9b5a3126c520ce8516bd31cd8fab90a08e120e7f