Commits · 82ed8cc94b74c7990a08532c3fe3687f1b0326a9 · remy / OrthoFinder · GitLab

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Sep 02, 2016
- Remove dependency on ete2, use tree structure & file reading under GNU GPLv3 · 82ed8cc9
  David Emms authored 8 years ago
  
  82ed8cc9
Aug 30, 2016
- merge README changes · 32914222
  David Emms authored 8 years ago
  
  View commits for tag v1.0.0-beta v1.0.0-beta
  
  32914222
- Remove scripts directory · 9d2b9176
  David Emms authored 8 years ago
  
  9d2b9176
- Update README.md · 84461921
  SteveKellyLab authored 8 years ago
  
  84461921
- Update README.md · 353a0e62
  SteveKellyLab authored 8 years ago
  
  353a0e62
- Update README.md · 8a72af98
  SteveKellyLab authored 8 years ago
  
  8a72af98
- Update README.md · 35f663a8
  SteveKellyLab authored 8 years ago
  
  35f663a8
- Update README.md · 7ccb75ec
  SteveKellyLab authored 8 years ago
  
  7ccb75ec
- Integrate orthologues pipeline · ac9a45a4
  David Emms authored 8 years ago
  
  ac9a45a4
- Improve handling of large gene trees · e7b50221
  David Emms authored 8 years ago
  
  e7b50221
Aug 20, 2016
- Infer orthologues automagically · 19a91e81
  David Emms authored 8 years ago
  
  19a91e81
- Remove temporary files · 0c546ff1
  David Emms authored 8 years ago
  
  0c546ff1
- Analyse each of the best species tree roots · f3c37488
  David Emms authored 8 years ago
  
  f3c37488
Aug 19, 2016
- Tidy up output · fe6cb24c
  David Emms authored 8 years ago
  
  fe6cb24c
- Create one directory per species for orthologues · dabb9d86
  David Emms authored 8 years ago
  
  dabb9d86
Aug 18, 2016
- Infer Orthologues, first draft · aaa4a7d0
  David Emms authored 8 years ago
  
  aaa4a7d0
Aug 17, 2016
- Infer gene and species trees. Standardise interface and output directory structure · 0b473ba4
  David Emms authored 8 years ago
  
  0b473ba4
- Replace illegal characters in accessions. Resolves #28 · 37b1b0df
  David Emms authored 8 years ago
  
  37b1b0df
Jul 18, 2016
- Add testing of standalone binaries · 0d510bc4
  David Emms authored 8 years ago
  
  View commits for tag 0.7.1 0.7.1
  
  0d510bc4
- Add testing of standalone binaries · 680a44fe
  David Emms authored 8 years ago
  
  680a44fe
- Simplify output · e4d4385a
  David Emms authored 8 years ago
  
  e4d4385a
Jul 15, 2016
- Increment version number · ccb76a5d
  David Emms authored 8 years ago
  
  ccb76a5d
- Add description of statistics files · 3896b55b
  David Emms authored 8 years ago
  
  3896b55b
- Merge branch 'stats' · 1aa13e10
  David Emms authored 8 years ago
  
  1aa13e10
- Output orthogroups stats · ff9edca3
  David Emms authored 8 years ago
  
  ff9edca3
Jul 11, 2016
- Updated README.me -- standalone binaries · d6ca340a
  davidemms authored 8 years ago
  
  View commits for tag v0.6.1 v0.6.1
  
  d6ca340a
Jul 08, 2016
- Initial workflow for gene and species trees · 3eff1995
  David Emms authored 8 years ago
  
  3eff1995
- Add test for blast runs when adding species · e5aa582f
  David Emms authored 8 years ago
  
  e5aa582f
Jul 01, 2016
- XMerge branch 'master' of https://github.com/davidemms/OrthoFinder · 46d3b184
  David Emms authored 8 years ago
  
  46d3b184
- Exit gracefully in case of error. Closes #25 · f3487a90
  David Emms authored 8 years ago
  
  f3487a90
Jun 23, 2016
- Update README.md · 6e6a053b
  SteveKellyLab authored 8 years ago
  
  6e6a053b
- Merge branch 'master' of https://github.com/davidemms/OrthoFinder · d1d31bf9
  David Emms authored 8 years ago
  
  d1d31bf9
- Add tests for trees when species have been removed · fd841290
  David Emms authored 8 years ago
  
  fd841290
- Update README.md · 0c6baaa0
  SteveKellyLab authored 8 years ago
  
  0c6baaa0
- Expose MCL inflation parameter. Resolves #23 · 8672324f
  David Emms authored 8 years ago
  
  8672324f
Jun 21, 2016
- Parallelise the remainder of the OrthoFinder algorithm (format README file) · d9c4d800
  davidemms authored 8 years ago
  
  View commits for tag v0.6 v0.6
  
  d9c4d800
- Parallelise the remainder of the OrthoFinder algorithm · 8f1735b5
  David Emms authored 8 years ago
  
  8f1735b5
Jun 15, 2016
- Make tests (add X species) robust to version number changes. · eb890a31
  David Emms authored 8 years ago
  
  eb890a31
- Improve parallel workload balancing. Add suite of Regression Tests · c3254fca
  David Emms authored 8 years ago
  
  View commits for tag v0.5 v0.5
  
  c3254fca
Feb 08, 2016
- Add #! (shebang) to python scripts, this closes #16 · 5614fb53
  David Emms authored 9 years ago
  
  5614fb53