Commits · master · William Trenfield / arboresce

16 Oct, 2022 1 commit
- added trim method for chow liu tree as well as method to draw spheres · c04c9e9c
  William Trenfield authored Oct 16, 2022
  
  c04c9e9c
21 Sep, 2022 1 commit
- added function to compare reconstructed and true MI · f8d8f441
  William Trenfield authored Sep 21, 2022
  
  f8d8f441
20 Sep, 2022 1 commit
- Merge branch 'master' of git.biohpc.swmed.edu:williamtrenfield/arboresce · ddab9759
  William Trenfield authored Sep 20, 2022
  
  ddab9759
14 Sep, 2022 1 commit
- added some analysis utilities · 548e6a75
  William Trenfield authored Sep 14, 2022
  
  548e6a75
18 Aug, 2022 1 commit
- modified chow_liu.py and arboresce.py to not use joblib temporarily because of... · f2fb5813
  William Trenfield authored Aug 18, 2022
```
modified chow_liu.py and arboresce.py to not use joblib temporarily because of BioHPC filesystem problems
```
  f2fb5813
17 Aug, 2022 3 commits
- Rewrote to handle multiple chains by creating a dataclass for residue records. · 6ff317db
  William Trenfield authored Aug 17, 2022
  
  6ff317db
- added hemoglobin data for testing · 8a8defa5
  William Trenfield authored Aug 17, 2022
  
  8a8defa5
- Modified template file to use .pdb extension rather than .gro, which caused pymol to throw errors:w · 2099dc89
  William Trenfield authored Aug 17, 2022
  
  2099dc89
12 Aug, 2022 1 commit
- modified how kwargs are passed around · 2627cf83
  William Trenfield authored Aug 12, 2022
  
  2627cf83
11 Aug, 2022 6 commits
- Corrected assignment of log_likelihood_trace · a3d83347
  William Trenfield authored Aug 11, 2022
  
  a3d83347
- Worked out advancement of EM only on unconverged fit states · 1cb0b88a
  William Trenfield authored Aug 11, 2022
  
  1cb0b88a
- Added some options and more logging. · 9601a8f3
  William Trenfield authored Aug 11, 2022
  
  9601a8f3
- added deubbing message to loader · 99a561ac
  William Trenfield authored Aug 11, 2022
  
  99a561ac
- added some global debugging functionality for arboresce.py to more quickly... · 20d116c3
  William Trenfield authored Aug 11, 2022
```
added some global debugging functionality for arboresce.py to more quickly catch problems that ariseonly after long load times
```
  20d116c3
- added filtering of empty dictionaries to avoid attempting to stack nothing · b3435d51
  William Trenfield authored Aug 11, 2022
  
  b3435d51
10 Aug, 2022 5 commits
- Changed typo that left out stride parameter in arboresce.load_data · 057ac3a1
  William Trenfield authored Aug 10, 2022
  
  057ac3a1
- Fixed issue with inconsistent ordering between jax tree_flatten and dictionary keys · c425144b
  William Trenfield authored Aug 10, 2022
  
  c425144b
- Fixed bug saving Chow-Liu edges · 07fa5e63
  William Trenfield authored Aug 10, 2022
  
  07fa5e63
- Cleaning up · 355bbef8
  William Trenfield authored Aug 10, 2022
  
  355bbef8
- Algorithms are all working. · af993f9f
  William Trenfield authored Aug 10, 2022
  
  af993f9f
08 Aug, 2022 3 commits
- added chow_liu.py and clustering.py · f1d6cc25
  William Trenfield authored Aug 08, 2022
  
  f1d6cc25
- arboresce.py fits mixture models now · 789f4e8b
  William Trenfield authored Aug 08, 2022
  
  789f4e8b
- Added *.pkl to .gitignore · 992cde79
  William Trenfield authored Aug 08, 2022
  
  992cde79
05 Aug, 2022 1 commit
- Initial commit · bbce9f18
  William Trenfield authored Aug 05, 2022
  
  bbce9f18