Commits · aff077d94168faa89f2e872133e784f9d3e2c0c4 · VEBER Philippe / codepi · GitLab

Docker-in-Docker (DinD) capabilities of public runners deactivated. More info

23 Nov, 2020 4 commits
- tk: moved pair_tree generation to Convergence_tree · aff077d9
  Philippe Veber authored Nov 23, 2020
  
  aff077d9
- tk/Convergence_tree.leaves: leave it be more general to be useful for more tree variants · 09144976
  Philippe Veber authored Nov 23, 2020
  
  09144976
- tk/Candidate_site: equivalent but more strictly typed reformulation · 8471965d
  Philippe Veber authored Nov 23, 2020
  
  8471965d
- tk/Tdg09: expose default implementation · f3ec331f
  Philippe Veber authored Nov 22, 2020
  
  f3ec331f
22 Nov, 2020 5 commits
- renaming · 87b4f2e6
  Philippe Veber authored Nov 22, 2020
  
  87b4f2e6
- tk: import Tdg09 from phylogenetics · c3de289d
  Philippe Veber authored Nov 22, 2020
  
  c3de289d
- import Profile_tsv and drop dep on phylogenetics.convergence · c9ac8bf2
  Philippe Veber authored Nov 22, 2020
  
  c9ac8bf2
- tk: move all range-related functions in its module · 317e7ede
  Philippe Veber authored Nov 22, 2020
  
  317e7ede
- tk/Multinomial_test: added a permutation test · 6815030e
  Philippe Veber authored Nov 22, 2020
  
  6815030e
21 Nov, 2020 6 commits
- tk/Multinomial_test.chisq: heuristic for sparse counts · 5b2db384
  Philippe Veber authored Nov 21, 2020
  
  5b2db384
- tk/Multinomial_test.uniformity_test: opt to reject sites with single AA · a90765e5
  Philippe Veber authored Nov 21, 2020
  
  a90765e5
- tk/Multinomial_test: fixed data non-zero count · 33746acc
  Philippe Veber authored Nov 21, 2020
  
  33746acc
- dune: declare codepi and codepitk as public · 2b8b8142
  Philippe Veber authored Nov 21, 2020
  
  2b8b8142
- tk/Multinomial_test: added chi-squared test implementation · d8691ea5
  Philippe Veber authored Nov 21, 2020
  
  d8691ea5
- tk/Multinomial_test: added a degree of freedom correction heuristic for lrt · 6b3eecf2
  Philippe Veber authored Nov 20, 2020
```
it is based on the assumption of Wilks theorem that the maximum
likelihood estimate shouldn't lie at the border of the parameter
space.
```
  6b3eecf2
19 Nov, 2020 3 commits
- renamed tk/Multinomial into Multinomial_test · 47ecba26
  Philippe Veber authored Nov 19, 2020
  
  47ecba26
- included multinomial test from phylogenetics_convergence · 8f0cb4f6
  Philippe Veber authored Nov 19, 2020
  
  8f0cb4f6
- new tk/Multinomial module · eb3f23a1
  Philippe Veber authored Nov 19, 2020
  
  eb3f23a1
17 Nov, 2020 4 commits
- tk/Cpt: fixed bug · 27217276
  Philippe Veber authored Nov 17, 2020
  
  27217276
- tk: new Cpt module · ce9c40f6
  Philippe Veber authored Nov 17, 2020
  
  ce9c40f6
- tk/Dataframe: added columns · 9dcc49a4
  Philippe Veber authored Nov 17, 2020
  
  9dcc49a4
- moved lib/toolbox to lib/tk · b295e9ff
  Philippe Veber authored Nov 17, 2020
  
  b295e9ff