Commits · 30614834d1ff930e34fec8b69895c3016983fcc9 · VEBER Philippe / codepi

21 Jan, 2021 3 commits
- rer_converge: fixes on script · 30614834
  Philippe Veber authored Jan 21, 2021
  
  30614834
- RERconverge : Rearrangement of gene trees to match species tree · 073aba01
  Louis Duchemin authored Jan 21, 2021
  
  073aba01
- RERconverge: don't use master_tree and add keep_ident to iqtree invocation · 5e8aa074
  Philippe Veber authored Jan 21, 2021
  
  5e8aa074
18 Jan, 2021 1 commit
- more fixes for rer converge, still not working though · 30b9a1dd
  Philippe Veber authored Jan 18, 2021
  
  30b9a1dd
15 Jan, 2021 9 commits
- RERconverge executable (wip) · 6d392a45
  Louis Duchemin authored Jan 15, 2021
  
  6d392a45
- Orthomam : adjusting pipeline upstream of rer_converge · 88297304
  Louis Duchemin authored Jan 15, 2021
  
  88297304
- Orthomam : add type annotations to clip_tree_on_alignment · 4a7cbafd
  Louis Duchemin authored Jan 15, 2021
  
  4a7cbafd
- Fixed typo in orthomam · cf04dbb7
  Louis Duchemin authored Jan 15, 2021
  
  cf04dbb7
- Setup docker for RER converge · 3a8f0be2
  Louis Duchemin authored Jan 15, 2021
  
  3a8f0be2
- Change Orthomam.rer_converge signature · f5ba4432
  Louis Duchemin authored Jan 15, 2021
  
  f5ba4432
- RER converge start up handle from orthomam · 92bcfe14
  Louis Duchemin authored Jan 15, 2021
  
  92bcfe14
- RER converge autoformat · d79f5bbb
  Louis Duchemin authored Jan 15, 2021
  
  d79f5bbb
- RER converge : phenotypes file from species list · ccba87bb
  Louis Duchemin authored Jan 15, 2021
  
  ccba87bb
14 Jan, 2021 2 commits
- RER converge pipeline · 822dfab1
  Louis Duchemin authored Jan 14, 2021
  
  822dfab1
- Merge branch 'new-cli' · 12048c65
  Philippe Veber authored Jan 14, 2021
  
  12048c65
21 Dec, 2020 1 commit
- Run: added pcoc method · 6a7e6b9a
  Philippe Veber authored Dec 21, 2020
  
  6a7e6b9a
20 Dec, 2020 13 commits
- Run: command-line choice of methods · 9be15cf6
  Philippe Veber authored Dec 20, 2020
  
  9be15cf6
- Run: added tdg09 · 45225422
  Philippe Veber authored Dec 20, 2020
  
  45225422
- Run: generate alignment plots and link to them · 4b01833c
  Philippe Veber authored Dec 20, 2020
  
  4b01833c
- Detection_pipeline: added alignment_plot · 902daf92
  Philippe Veber authored Dec 20, 2020
  
  902daf92
- tk/Note: support for html tables is back · 6c720711
  Philippe Veber authored Dec 20, 2020
  
  6c720711
- Run: improved presentation of candidate page · 778e8a72
  Philippe Veber authored Dec 20, 2020
  
  778e8a72
- tk/Note: use marx for css · c5816ae1
  Philippe Veber authored Dec 20, 2020
  
  c5816ae1
- tk/Note: option for croquis size configuration · 89a58f33
  Philippe Veber authored Dec 20, 2020
  
  89a58f33
- tk/Candidate_site.draw: minor layout fix · 5b1f5f2d
  Philippe Veber authored Dec 20, 2020
  
  5b1f5f2d
- Run: output candidate sites for each site · 09f34037
  Philippe Veber authored Dec 20, 2020
  
  09f34037
- tk/Note: support for croquis · b882da10
  Philippe Veber authored Dec 20, 2020
  
  b882da10
- tk/Note: enable dataframe rendering customization · 34c1af61
  Philippe Veber authored Dec 20, 2020
  
  34c1af61
- tk/Dataframe: slightly more flexible API for html rendering · fd4cf9de
  Philippe Veber authored Dec 20, 2020
  
  fd4cf9de
19 Dec, 2020 1 commit
- tk/Dataframe.to_html: added argument for custom table cell renderi · f3da8080
  Philippe Veber authored Dec 19, 2020
  
  f3da8080
18 Dec, 2020 1 commit
- Run: report for multinomial · 625c0855
  Philippe Veber authored Dec 18, 2020
  
  625c0855
17 Dec, 2020 4 commits
- Detection_pipeline.ranking: make query description optional · b2a45e9a
  Philippe Veber authored Dec 17, 2020
  
  b2a45e9a
- Dataset: clip tree with respect to each alignment · f30d0759
  Philippe Veber authored Dec 17, 2020
  
  f30d0759
- tk/Note: fixed call to pandoc · bf918464
  Philippe Veber authored Dec 17, 2020
  
  bf918464
- tk/Dataframe: added make · 0296be39
  Philippe Veber authored Dec 17, 2020
  
  0296be39
16 Dec, 2020 3 commits
- tk/Note: fixed call to pandoc · 38b176d9
  Philippe Veber authored Dec 16, 2020
  
  38b176d9
- tk/Note: support for dataframe · a4f8dddc
  Philippe Veber authored Dec 16, 2020
  
  a4f8dddc
- tk/Dataframe: html rendering · 39f20f75
  Philippe Veber authored Dec 16, 2020
  
  39f20f75
15 Dec, 2020 2 commits
- Detection_pipeline: added ranking · 2bf80010
  Philippe Veber authored Dec 15, 2020
  
  2bf80010
- new tk/Note module · a4977c65
  Philippe Veber authored Dec 15, 2020
  
  a4977c65