Commits · b6a50ad7c41d8bc802a657c4cfa84bfc16de9db1 · VEBER Philippe / codepi

26 Oct, 2020 15 commits
- update wrt phylogenetics · b6a50ad7
  Philippe Veber authored Oct 26, 2020
  
  b6a50ad7
- orthomam: direct access to prestin · b4a5fdfc
  Philippe Veber authored Oct 25, 2020
  
  b4a5fdfc
- added signature for simulation_dataset · bcc0415c
  Philippe Veber authored Oct 25, 2020
  
  bcc0415c
- Ocamlformat configuration · e336f30c
  Louis Duchemin authored Oct 26, 2020
  
  e336f30c
- Failing test on site indices for Gemma workflow · effbd38f
  Louis Duchemin authored Oct 26, 2020
  
  effbd38f
- Autoformat · ddc1b8c7
  Louis Duchemin authored Oct 26, 2020
  
  ddc1b8c7
- Implements toolbox.Utils.range_find · cb7dd15a
  Louis Duchemin authored Oct 26, 2020
  
  cb7dd15a
- Implements toolbox.Utils.range_for_all with tests · 805f6a43
  Louis Duchemin authored Oct 26, 2020
  
  805f6a43
- Autoformat · 08949d34
  Louis Duchemin authored Oct 26, 2020
  
  08949d34
- Failing test for Gemma toolbox · edd6f630
  Louis Duchemin authored Oct 26, 2020
  
  edd6f630
- Implements Gemma.min_pvalue_aggregator · 6272890c
  Louis Duchemin authored Oct 26, 2020
  
  6272890c
- Exposes toolbox.Result_table.nrows · e7a9f864
  Louis Duchemin authored Oct 26, 2020
  
  e7a9f864
- Implements Gemma output to Result_table workflow · 82c33888
  Louis Duchemin authored Oct 26, 2020
  
  82c33888
- Fixed grouping break function in toolbox.Gemma · 868cfd29
  Louis Duchemin authored Oct 26, 2020
  
  868cfd29
- Implements toolbox.Result_table.to_file · 9a086443
  Louis Duchemin authored Oct 26, 2020
  
  9a086443
23 Oct, 2020 6 commits
- Stronger typing for Gemma.Result_file · 85b9a22e
  Louis Duchemin authored Oct 23, 2020
  
  85b9a22e
- Tighter typing for Gemma.Result_file.to_result_table · 95106304
  Louis Duchemin authored Oct 23, 2020
  
  95106304
- Fixed typo · 85950981
  Louis Duchemin authored Oct 23, 2020
  
  85950981
- Autoformat · daf6fca8
  Louis Duchemin authored Oct 23, 2020
  
  daf6fca8
- Gemma.Result_file module for processing Gemma raw output · 8bbf97e0
  Louis Duchemin authored Oct 23, 2020
  
  8bbf97e0
- ocamlformat formatting · bedde902
  Philippe Veber authored Oct 23, 2020
  
  bedde902
22 Oct, 2020 2 commits
- Add function view_site() to detection pipeline · 5995647f
  Louis Duchemin authored Oct 22, 2020
```
Work in progress, is broken right now
```
  5995647f
- Gemma univariate LMM call as Bistro workflow · c2f56eac
  Louis Duchemin authored Oct 22, 2020
  
  c2f56eac
21 Oct, 2020 1 commit
- Gemma pipeline implementation : relatedness matrix · c67a3c8f
  Louis Duchemin authored Oct 21, 2020
  
  c67a3c8f
17 Oct, 2020 2 commits
- Gemma pipeline for relatedness matrix · 6b7c7e02
  Louis Duchemin authored Oct 17, 2020
  
  6b7c7e02
- BIMBAM file format definition · 8c0cd86d
  Louis Duchemin authored Oct 17, 2020
  
  8c0cd86d
16 Oct, 2020 3 commits
- Updated gitignore · cd5f70b6
  Louis Duchemin authored Oct 16, 2020
  
  cd5f70b6
- Gemma module base implementation · fc60bb7f
  Louis Duchemin authored Oct 16, 2020
  
  fc60bb7f
- Implement range_iter function · 002b66ac
  Louis Duchemin authored Oct 16, 2020
  
  002b66ac
13 Oct, 2020 1 commit
- update wrt core · 78fa2386
  Philippe Veber authored Oct 13, 2020
  
  78fa2386
30 Jul, 2020 1 commit
- update pcoc version (fix error, optimize gamma.alpha in rate_distribution) · c5af63bf
  Carine Rey authored Jul 30, 2020
  
  c5af63bf
29 Jul, 2020 5 commits
- Merge branch 'orthomam' · cbb474fb
  Philippe Veber authored Jul 29, 2020
  
  cbb474fb
- Orthomam: added draw site · fb326a34
  Philippe Veber authored Jul 29, 2020
  
  fb326a34
- toolbox/Candidate_site.draw: write species names at leaves · 28396f9e
  Philippe Veber authored Jul 29, 2020
  
  28396f9e
- toolbox/Candidate_site: more general type · 2e8d5ff5
  Philippe Veber authored Jul 29, 2020
  
  2e8d5ff5
- toolbox/Orthomam_db: stricter typing · b46d403c
  Philippe Veber authored Jul 29, 2020
  
  b46d403c
13 Jul, 2020 3 commits
- toolbox/Candidate_site.draw: draw amino acids · fd5f4556
  Philippe Veber authored Jul 13, 2020
  
  fd5f4556
- toolbox/Candidate_site: actual tree representation for site drawing · 753d8b10
  Philippe Veber authored Jul 13, 2020
  
  753d8b10
- toolbox/Candidate_site: fixed collapsed tree representation · c97f135a
  Philippe Veber authored Jul 13, 2020
  
  c97f135a
12 Jul, 2020 1 commit
- Orthomam.Candidate_site: added group_by_gen · 8f06c08a
  Philippe Veber authored Jul 10, 2020
  
  8f06c08a