Commits · e7b5022124b5b850fcfb0fb5c2ec1605e1de7304 · remy / OrthoFinder · GitLab

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Aug 30, 2016
- 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
- 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
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
Jan 28, 2016
- Add 'What's New' to README · 5e34d9c7
  davidemms authored 9 years ago
  
  View commits for tag v0.4 v0.4
  
  5e34d9c7
- Major functionality: Add or remove species · 4ebc3d8d
  David Emms authored 9 years ago
  
  4ebc3d8d
- Merge pull request #13 from SteveKellyLab/master · 53527f95
  davidemms authored 9 years ago
  53527f95
- Update README.md · f5e87804
  SteveKellyLab authored 9 years ago
  
  f5e87804
Jan 27, 2016
- Update README.md · ad01e240
  SteveKellyLab authored 9 years ago
  
  ad01e240
- Update README.md · 879b655a
  SteveKellyLab authored 9 years ago
  
  879b655a
- Update README.md · 2193e9c4
  SteveKellyLab authored 9 years ago
  
  2193e9c4
- Update README.md · 917428b8
  SteveKellyLab authored 9 years ago
  
  917428b8
- Update README.md · dfcc7673
  SteveKellyLab authored 9 years ago
  
  dfcc7673
- Update README.md · 8eec5f56
  SteveKellyLab authored 9 years ago
  
  8eec5f56
- Update README.md · 41a40622
  SteveKellyLab authored 9 years ago
  
  41a40622
Dec 15, 2015
- Extend error messaging for user-supplied BLAST results. · 00edc4c1
  David Emms authored 9 years ago
  
  View commits for tag v0.3.1 v0.3.1
  
  00edc4c1
Nov 26, 2015
- Improve error messaging for malformatted user-supplied BLAST results. Closes #9 · 5b15908c
  David Emms authored 9 years ago
  
  5b15908c
Nov 13, 2015
- Update README.md to name of zip file produced by github · 7de8ca9b
  davidemms authored 9 years ago
  
  7de8ca9b
- Deal with duplicate accessions when generating trees. This closes #7 · e6c5cf98
  David Emms authored 9 years ago
  
  e6c5cf98
Nov 12, 2015
- Use explicit command to mafft-linsi instead of alias · 53e4fa02
  David Emms authored 9 years ago
  
  53e4fa02
Oct 29, 2015
- Update README.md · 809efbb4
  davidemms authored 9 years ago
  
  809efbb4
Sep 30, 2015
- Merge pull request #3 from varnion/patch-1 · 15eff185
  davidemms authored 9 years ago
  15eff185
- Resolve #4. Make number of zero characters in output files consistent. · 44e55a6c
  davidemms authored 9 years ago
  
  44e55a6c