Commits · 182b003576b7836fbe7f54877868a93803d79d6a · Salson Mikael / coverind

Browse files

Feb 10, 2020
- .gitlab-ci.yml: Fix package installation · 182b0035
  Salson Mikael authored 5 years ago
  
  182b0035
- .gitlab-ci.yml: Add coverind among the artifacts for the tests · b3989894
  Salson Mikael authored 5 years ago
  
  b3989894
- .gitlab-ci.yml: Switch to apt-get · 71461cd7
  Salson Mikael authored 5 years ago
  71461cd7
- .gitlab-ci.yml: Add apt-update before installing · 7b132ee8
  Salson Mikael authored 5 years ago
  
  7b132ee8
- lib: Add CLI11 lib · 62985e3c
  Salson Mikael authored 5 years ago
  
  62985e3c
- Tests: add tests for the CLI · 7c27b53a
  Salson Mikael authored 5 years ago
  
  7c27b53a
- Coverind: Add info on BED · cdb85ac5
  Salson Mikael authored 5 years ago
  
  cdb85ac5
- MultiCover: Fix case when window is larger than chromosome · 0348f123
  Salson Mikael authored 5 years ago
  
  0348f123
- coverind.cpp: CLI to build and query index · 81bfb8c1
  Salson Mikael authored 5 years ago
  
  81bfb8c1
- multicover.hpp: refactor generateBED in smaller functions · 366e073d
  Salson Mikael authored 5 years ago
  366e073d
- multicover: make getChrIndex const · 29663cb2
  Salson Mikael authored 5 years ago
  
  29663cb2
Jan 18, 2020
- Add LICENSE · 4049548c
  Salson Mikael authored 5 years ago
  
  4049548c
- Add tests and data for tests · 0d2b3617
  Salson Mikael authored 5 years ago
  
  0d2b3617
- Add an example · b39ab15e
  Salson Mikael authored 5 years ago
  
  b39ab15e
- Rely on chromosome index rather than names for saving the BV · 39500cb1
  Salson Mikael authored 5 years ago
  
  39500cb1
- Add CI · 678de1de
  Salson Mikael authored 5 years ago
  
  678de1de
Jan 16, 2020
- Refactor LDFLAGS options in Makefile · 785ee5c3
  Salson Mikael authored 5 years ago
  
  785ee5c3
- Add -DNDEBUG flag to compilation options · 424699ca
  Salson Mikael authored 5 years ago
  424699ca
- Use MultiCover in benchmark.cpp instead of Coverind · 2863ae6f
  Salson Mikael authored 5 years ago
  
  2863ae6f
- Add class to deal with multiple sequences · 5da2c5e9
  Salson Mikael authored 5 years ago
  
  5da2c5e9
- Remove rank/select storage to file in Coverind · 4789e783
  Salson Mikael authored 5 years ago
  4789e783
- Add Coverind constructor with bit vectors passed in parameters · 5b30807d
  Salson Mikael authored 5 years ago
  5b30807d
- refactor Coverind constructors · b5f06d3a
  Salson Mikael authored 5 years ago
  b5f06d3a
- Add dataset for tests · be8ccc33
  Salson Mikael authored 5 years ago
  be8ccc33
- update benchmark.cpp · 6b79e62c
  Salson Mikael authored 5 years ago
  6b79e62c
- Add gzstream lib · 8372b34e
  Salson Mikael authored 5 years ago
  
  8372b34e
Jan 14, 2020
- bug: byte EOF may exist in the file · f7137422
  Salson Mikael authored 5 years ago
  
  f7137422
- fixup · ad4001b3
  Salson Mikael authored 5 years ago
  
  ad4001b3
- Loading from saved files · aaa1d0f2
  Salson Mikael authored 5 years ago
  
  aaa1d0f2
- Save: add . for the extension · ae9a2fbb
  Salson Mikael authored 5 years ago
  
  ae9a2fbb
- Differentiate reads starting or ending before position · 4df13b16
  Salson Mikael authored 5 years ago
  
  4df13b16
Jan 13, 2020
- coverind.hpp: Use template for rank/select support · 514893d4
  Salson Mikael authored 5 years ago
  
  514893d4
- init · bc3d61d8
  Salson Mikael authored 5 years ago
  
  bc3d61d8