Commits · 083a20c40c834ec0e8174d8a5fe485579beff9f9 · github_fork / Chromap · GitLab

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May 08, 2025
- added debug code and options/added cache size, cache param, all reads... · 083a20c4
  oma219 authored Nov 12, 2024
  083a20c4
Nov 09, 2024
- Fix an issue of MD string, where 0 is inserted between adjacent mismatches and... · 9b016207
  mourisl authored Aug 15, 2024
  View commits for tag v0.2.7 v0.2.7
  
  9b016207
Aug 14, 2024
- Add the row that summarize the number of fragments that can not be barcode corrected · 4673c364
  mourisl authored Aug 07, 2024
  
  4673c364
- Do not count the barcode that is not in the whitelist in the summary · 5e67115d
  mourisl authored Jul 22, 2024
  
  5e67115d
- Add a warning message about temp file size. Decrease the temp file doubling threshold to 850. · 3b55bd45
  mourisl authored Jul 19, 2024
  
  3b55bd45
- max_num_mappings_in_mem when using too many temp files · 2af1986f
  Li authored May 11, 2024
  
  2af1986f
May 11, 2024
- Bump up version number · cac1ff54
  Li authored May 08, 2024
  
  cac1ff54
- Use local directory to hold tempoary files when the output file is to stdout or stderr · c1fff8bc
  Li authored May 08, 2024
  
  c1fff8bc
Mar 26, 2024
- Update manpage link in README.md · 30ec17e1
  swiftgenomics authored Mar 25, 2024
  
  30ec17e1
Jan 31, 2024
- Add some debug information when reading the temporary file · 9e8c9802
  Li authored Jan 25, 2024
  
  View commits for tag v0.2.6 v0.2.6
  
  9e8c9802
- Bump up version number · 37541769
  Li authored Jan 25, 2024
  
  37541769
- Update readme · b2d09093
  Li authored Jan 04, 2024
  
  b2d09093
- Fix a bug in summary the alignment stats when outputing SAM format · 4af36173
  Li authored Dec 25, 2023
  
  4af36173
- Output duplication number in bulk bed format too. · 16792ede
  Li authored Dec 22, 2023
  
  16792ede
Dec 20, 2023
- Add more include for stdint · c68c2996
  Li authored Dec 14, 2023
  
  c68c2996
- Add more include for stdint · 54a190c3
  Li authored Dec 14, 2023
  
  54a190c3
- Move li_dev4's content to li_dev5, including no-sorting read-format, and... · 577cccfd
  Li authored Sep 06, 2023
  577cccfd
Sep 06, 2023
- Update version. · 1b6c2d09
  Swift Genomics authored Aug 29, 2023
  
  1b6c2d09
- Update the README on using wildcards in file names. · 32421540
  Swift Genomics authored Aug 29, 2023
  
  32421540
- Support wildcards in read file names. · 3471243b
  Swift Genomics authored Aug 29, 2023
  
  3471243b
- Use separate functions to add options. · 47dfb47d
  Swift Genomics authored Aug 29, 2023
  
  47dfb47d
- Use a func to add indexing options. · c55b92c9
  Swift Genomics authored Aug 29, 2023
  c55b92c9
May 24, 2023
- Update manual · 9620d139
  Li authored May 20, 2023
  
  View commits for tag v0.2.5 v0.2.5
  
  9620d139
- Update readme. Use true num_dup as much as possible. · 240078dd
  Li authored May 19, 2023
  
  240078dd
- Fix an issue of not outputing the summary statistics. · 937fbadd
  Li authored May 19, 2023
  
  937fbadd
- Implement the count for total and unmapped. · 8674acf1
  Li authored May 18, 2023
  
  8674acf1
- Implement dup and lowmapq count summary output · 1a537f74
  Li authored May 18, 2023
  
  1a537f74
- Add the class handling barcode summary metadata · 316fd84e
  Li authored May 18, 2023
  
  316fd84e
Jan 05, 2023
- Bump up version number in man page · b9b79532
  Li authored Jan 04, 2023
  
  View commits for tag v0.2.4 v0.2.4
  
  b9b79532
- Allow gizpped barcode translate file. Bump up version number. Update a comment. · d72e3595
  Li authored Jan 04, 2023
  
  d72e3595
- Bump up version number · fc633831
  Li authored Jan 03, 2023
  
  fc633831
- Fix several small issues. · b602fda2
  Li authored Dec 07, 2022
  
  b602fda2
- Preliminary implementation of adding paired-end information in SAM output. · 78967af2
  Li authored Dec 06, 2022
  
  78967af2
Dec 07, 2022
- Update version number. · 29bc02d0
  Li authored Dec 07, 2022
  
  29bc02d0
- Make buffer size a const variable. Check whether gz can reach eof. · eb1cc29c
  Li authored Dec 07, 2022
  
  eb1cc29c
- Allow gzipped barcode whitelist file. · 2c186c86
  Li authored Dec 06, 2022
  
  2c186c86
Dec 01, 2022
- Update issue templates · 00303c67
  Haowen Zhang authored Nov 30, 2022
  00303c67
Nov 28, 2022
- Refactor SequenceBatch. · b3fad740
  Swift Genomics authored Nov 28, 2022
  
  b3fad740
Nov 14, 2022
- Merge branch 'master' into li_dev3 · 1fdd749e
  Li Song authored Nov 13, 2022
  
  1fdd749e
- Better file names for input reads. · db21c154
  Haowen Zhang authored Sep 11, 2022
  
  db21c154

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