Commits · 12dab7bee14f39237092690ba1e676676803bafe · VEBER Philippe / codepi · GitLab

12 Sep, 2018 12 commits
- add new hypo (work still in progress) · 12dab7be
  Carine Rey authored Sep 07, 2018
  
  12dab7be
- add new hypo (work in progress) · e6e7603b
  Carine Rey authored Sep 07, 2018
  
  e6e7603b
- new plots · 40dbc4db
  Carine Rey authored Sep 07, 2018
  
  40dbc4db
- Revert "try NeG5_NeC_2.5 et NeG2.5_NeC5" · 377f7f64
  Carine Rey authored Sep 07, 2018
```
This reverts commit ed2857b1.
```
  377f7f64
- try NeG5_NeC_2.5 et NeG2.5_NeC5 · 956fe71d
  Carine Rey authored Sep 07, 2018
  
  956fe71d
- fix typo · df0facf1
  Carine Rey authored Sep 06, 2018
  
  df0facf1
- add plot Eucl D · b265a412
  Carine Rey authored Sep 06, 2018
  
  b265a412
- rm t · 49043724
  Carine Rey authored Sep 06, 2018
  
  49043724
- add Min in profile.ml + use Unif_3 by default · 8964bf65
  Carine Rey authored Sep 06, 2018
  
  8964bf65
- add NeG1_NeC_5 NeG5_NeC_1 · 49d9223a
  Carine Rey authored Sep 06, 2018
  
  49d9223a
- update tdg09 FDR -> LRT + plot · d5954698
  Carine Rey authored Sep 06, 2018
  
  d5954698
- add plot dist · b0512326
  Carine Rey authored Sep 05, 2018
  
  b0512326
11 Sep, 2018 1 commit
- Added a Cyp tree rescaled to have the same number of aa substititions in simulated vs real data. · 081cea32
  boussau authored Sep 11, 2018
  
  081cea32
05 Sep, 2018 3 commits
- alistats mode: computation of mean number of residues per column · 4c569e33
  Philippe Veber authored Sep 05, 2018
  
  4c569e33
- functions on alignments · 6bc754e8
  Philippe Veber authored Sep 05, 2018
  
  6bc754e8
- change aa order · b99a314e
  Carine Rey authored Sep 05, 2018
  
  b99a314e
04 Sep, 2018 10 commits
- Corrected warning in profile.ml · 80b65b06
  LANORE Vincent authored Sep 04, 2018
  
  80b65b06
- refactoring in profile.ml · 1b83c56f
  Carine Rey authored Sep 04, 2018
  
  1b83c56f
- put together all docker env versions · 708615e3
  Carine Rey authored Sep 04, 2018
  
  708615e3
- update bppsuite docker · 98084400
  Carine Rey authored Sep 04, 2018
  
  98084400
- Now computing add_indel seed from global dataset seed. · 692a9283
  LANORE Vincent authored Sep 04, 2018
  
  692a9283
- Pipeline now passes seed to add_indel script (currently a random seed per fna; to be fixed). · 66dbf3dc
  LANORE Vincent authored Sep 04, 2018
  
  66dbf3dc
- Added seed option to indel script (was tested; seems to work). · 5b8de38b
  LANORE Vincent authored Sep 04, 2018
  
  5b8de38b
- Pair generation now takes a seed. · 591a053a
  LANORE Vincent authored Sep 04, 2018
  
  591a053a
- Global seed is now written to file (outdir/global.seed). · bb0c512b
  LANORE Vincent authored Sep 04, 2018
  
  bb0c512b
- Adjusted bounds for profile distance classes (so as not to discard high-distance pairs). · 93a3f87f
  LANORE Vincent authored Sep 04, 2018
  
  93a3f87f
03 Sep, 2018 1 commit
- time_logger: resume on failure operational · 2fc375b6
  Philippe Veber authored Sep 03, 2018
  
  2fc375b6
31 Aug, 2018 13 commits
- Updated tdg09 docker with fixed tdg09 · 9443ef17
  LANORE Vincent authored Aug 31, 2018
  
  9443ef17
- Merge branch 'master' into get_fixed_seeds · 9e81940a
  LANORE Vincent authored Aug 31, 2018
  
  9e81940a
- end add dataset with indels · 0972a129
  Carine Rey authored Aug 31, 2018
  
  0972a129
- add exe · df593f00
  Carine Rey authored Aug 31, 2018
  
  df593f00
- Changed seed calculation to use proper hash functions. · 7a6deec3
  LANORE Vincent authored Aug 31, 2018
  
  7a6deec3
- add a new couple with indels · 2bcb3e92
  Carine Rey authored Aug 31, 2018
  
  2bcb3e92
- update totake into account indels · aed9c6ab
  Carine Rey authored Aug 31, 2018
  
  aed9c6ab
- update pcoc version (take into account indels) · 6fab92e8
  Carine Rey authored Aug 31, 2018
  
  6fab92e8
- elapsed_time file now contains the date so as not to be overwritten on re-running the pipeline. · aa74e39b
  LANORE Vincent authored Aug 31, 2018
  
  aa74e39b
- add in the repo the figure for the paper · c8363867
  Carine Rey authored Aug 31, 2018
  
  c8363867
- add msd in the plot_per_hyp · 9c41e5c0
  Carine Rey authored Aug 31, 2018
  
  9c41e5c0
- Updated msd version (sources + dockerfile + docker version in pipeline). · dc3ac956
  LANORE Vincent authored Aug 31, 2018
  
  dc3ac956
- Added init of caml random seed so the seed is indeed random when not providing one. · e516218a
  LANORE Vincent authored Aug 31, 2018
  
  e516218a