Commits · d0334577c3f990598c1d213ea996f1d3c7b501ad · github_fork / Chromap · GitLab

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Mar 20, 2022
- 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
- Remove an unused variable. · 43ddcdfa
  Haowen Zhang authored Feb 21, 2022
  
  43ddcdfa
- Minor change on mapping stats output function. · 824f0ce6
  Haowen Zhang authored Feb 21, 2022
  
  824f0ce6
- Clean up some code. · 16b0cc6f
  Haowen Zhang authored Feb 21, 2022
  
  16b0cc6f
- Use reference instead of pointers. · 9711b7ad
  Haowen Zhang authored Feb 21, 2022
  
  9711b7ad
- Remove an unused variable. · 17464272
  Haowen Zhang authored Feb 21, 2022
  
  17464272
- Use the format in examining barcode length. · 0ea86207
  Haowen Zhang authored Feb 21, 2022
  
  0ea86207
- Move mapping moving functions to MappingProcessor. · 025dd8ec
  Haowen Zhang authored Feb 20, 2022
  
  025dd8ec
- Move mapping output functions to MappingWriter. · 63f985cf
  Haowen Zhang authored Feb 20, 2022
  
  63f985cf
Feb 21, 2022
- Removed an unused function. · 53ecee88
  Haowen Zhang authored Feb 20, 2022
  
  53ecee88
- Make member variables const. · 05d59604
  Haowen Zhang authored Feb 20, 2022
  
  05d59604
- Clean up the code of MappingWriter. · ac1d8ce1
  Haowen Zhang authored Feb 20, 2022
  ac1d8ce1
- Make temp_mapping_file_handles a local variable. · 312caba1
  Haowen Zhang authored Feb 19, 2022
  
  312caba1
- Use a local variable to save mappings. · 1da16b17
  Haowen Zhang authored Feb 19, 2022
  
  1da16b17
- Make mapping_writer a local variable. · 1519d2a3
  Haowen Zhang authored Feb 19, 2022
  1519d2a3
- Move VerifyCandidate* functions to MappingGenerator. · 3ecd8904
  Haowen Zhang authored Feb 19, 2022
  3ecd8904
- Move Tn5 shift function to MappingProcessor. · 1dc57ab4
  Haowen Zhang authored Feb 19, 2022
  
  1dc57ab4
Feb 19, 2022
- Add missing variable in openmp clause. · cbdc8f8e
  Haowen Zhang authored Feb 18, 2022
  
  cbdc8f8e
- Add low-mem mode for single-end reads. · 41ea2d05
  Haowen Zhang authored Feb 18, 2022
  
  41ea2d05
Feb 18, 2022
- Fix QUAL and cigar memory allocation in SAM. · 748236de
  Haowen Zhang authored Feb 17, 2022
  748236de
- Add generator back as a parameter. · 570947e7
  Haowen Zhang authored Feb 17, 2022
  570947e7

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