Commits · 9b64a21ca0ed258eba651086ca33a52ac8ad19b9 · github_fork / Chromap · GitLab

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Mar 25, 2022
- Introduce an in memory mapping layout. · 9b64a21c
  Haowen Zhang authored Mar 24, 2022
  9b64a21c
- Add missing headers. · 0193ab5a
  Haowen Zhang authored Mar 24, 2022
  
  0193ab5a
- Add an todo for sam. · 1cca730f
  Haowen Zhang authored Mar 24, 2022
  
  1cca730f
- Code refactor. · 56978391
  Haowen Zhang authored Mar 23, 2022
  56978391
- Remove some unused code. · 92ecd0ad
  Haowen Zhang authored Mar 23, 2022
  
  92ecd0ad
- Clean code and add const or space when needed. · 4741ebd3
  Haowen Zhang authored Mar 23, 2022
  
  4741ebd3
- Format code. · c6d9e3ba
  Haowen Zhang authored Mar 23, 2022
  
  c6d9e3ba
- Remove manual mem allocation for heap sort. · a8f9f599
  Haowen Zhang authored Mar 22, 2022
  
  a8f9f599
- Format code for index. · 70059f8f
  Haowen Zhang authored Mar 22, 2022
  
  70059f8f
- Short parameter list for index construction. · 3812b8e6
  Haowen Zhang authored Mar 22, 2022
  3812b8e6
Mar 22, 2022
- Update version for a new release. · 36a05469
  Haowen Zhang authored Mar 21, 2022
  
  View commits for tag v0.2.1 v0.2.1
  
  36a05469
- Avoid passing too many parameters for verification. · 67d67814
  Haowen Zhang authored Feb 26, 2022
  
  67d67814
- Add some comment for force mapq. · 5afc489a
  Haowen Zhang authored Feb 25, 2022
  
  5afc489a
- Avoid passing too many parameters. · 0ec61ada
  Haowen Zhang authored Feb 25, 2022
  0ec61ada
Mar 20, 2022
- Fix gcc conversion warning. · d6e244e1
  Haowen Zhang authored Mar 09, 2022
  
  d6e244e1
- Fix warnings with clang and a wrong type conversion. · 3ff43093
  Haowen Zhang authored Mar 09, 2022
  
  3ff43093
- Change resize0 to clear. · 38164cf2
  Li authored Mar 18, 2022
  
  38164cf2
- Still use 64bit candidate sort. Further do not cache near the beginning. · 7d6be693
  Li authored Mar 18, 2022
  
  7d6be693
- Fix a problem of underflow causing wrong hit order · 8806e956
  Li authored Mar 13, 2022
  
  8806e956
- Adjust cache update threshold. · 450e04df
  Li authored Mar 09, 2022
  
  450e04df
- Do not cache the alignments near the beginning of a chromosome. Adjust the... · d0334577
  Li authored Mar 09, 2022
  d0334577
- Handle the case in cache that may underflow when shifting at beginning of ref 0. · 0ccd2c7a
  Li authored Mar 04, 2022
  
  0ccd2c7a
- Resolve an issue in updating candidate cache when the position is negative. · 18616c42
  Li authored Mar 04, 2022
  
  18616c42
Mar 10, 2022
- Add limits header for GCC 11 · dde27323
  vejnar authored Mar 09, 2022
  
  dde27323
Feb 23, 2022
- Update the version. · 3ce24141
  Haowen Zhang authored Feb 22, 2022
  
  View commits for tag v0.2.0 v0.2.0
  
  3ce24141
- Rename the variable to avoid confusion. · 17abb1bd
  Haowen Zhang authored Feb 22, 2022
  
  17abb1bd
- Delete default constructor for Index. · 532bcf88
  Haowen Zhang authored Feb 22, 2022
  
  532bcf88
- Pass the right parameters for index construction. · 47d213ed
  Haowen Zhang authored Feb 22, 2022
  
  47d213ed
- Add more explanations for custom chr order. · 86cbef33
  Haowen Zhang authored Feb 22, 2022
  86cbef33
- Rename the variables for clearer meaninig. · 3da88920
  Haowen Zhang authored Feb 22, 2022
  
  3da88920
- Clean up the code for generating custom rid rank. · 4237c1c0
  Haowen Zhang authored Feb 22, 2022
  
  4237c1c0
- Use reference to make code easier to read. · 560e286a
  Haowen Zhang authored Feb 22, 2022
  560e286a
- Delete default Chromap constructor. · 69e90046
  Haowen Zhang authored Feb 21, 2022
  
  69e90046
- Clean up the code. · 16de1d2d
  Haowen Zhang authored Feb 21, 2022
  
  16de1d2d
Feb 22, 2022
- Seperate chromap and its driver. · 2d253307
  Haowen Zhang authored Feb 21, 2022
  
  2d253307
- Only template mapping functions. · 83c4ca3d
  Haowen Zhang authored Feb 21, 2022
  
  83c4ca3d
- Move mapping stats functions to MappingProcessor. · 2942102a
  Haowen Zhang authored Feb 21, 2022
  
  2942102a
- Clean up the code of SequenceBatch. · da05c6e7
  Haowen Zhang authored Feb 21, 2022
  da05c6e7
- Remove openmp default clause for compatibility. · e47e3a1f
  Haowen Zhang authored Feb 21, 2022
  e47e3a1f
- Easier way to pass parameters to avoid bugs. · 6a39b40a
  Haowen Zhang authored Feb 21, 2022
  
  6a39b40a

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