Commits · 1f2a63c60ebba929b6c4ca08ec94b40089ad9431 · iago-lito / aphid · GitLab

Snippets Groups Projects

Mar 07, 2024
- Fix the semantics of `unresolved_length`. · 1f2a63c6
  iago-lito authored 1 year ago
  1f2a63c6
- Temporary fix, work around Glog subdep upgrade. · b2dfbc93
  iago-lito authored 1 year ago
  
  b2dfbc93
Feb 15, 2024
- Fix/Update README.md. · e44f6d33
  iago-lito authored 1 year ago
  
  e44f6d33
- Update container with pytorch (no CUDA yet). · 57718870
  iago-lito authored 1 year ago
  
  57718870
- Forbid that tau_1 == tau_2. · 321bbddb
  iago-lito authored 1 year ago
  
  321bbddb
- Bump dependencies. · 00974711
  iago-lito authored 1 year ago
  00974711
- Optimize likelihood with torch. · 170d54ae
  iago-lito authored 1 year ago
  170d54ae
- Satisfy clippy. · 16533383
  iago-lito authored 1 year ago
  
  16533383
- Fix `max_clock_ratio` meaning: Geometry Filter. · c1b52965
  iago-lito authored 1 year ago
  
  c1b52965
- Implement unresolved_length. Clarify length units. · 5f8bc8da
  iago-lito authored 1 year ago
  
  5f8bc8da
- Implement max_clock_ratio filter. · 48a7e5ed
  iago-lito authored 1 year ago
  
  48a7e5ed
- Satisfy clippy. · 1cc19c87
  iago-lito authored 1 year ago
  
  1cc19c87
- Implement triplet_other_monophyly filter. · ee09a8b2
  iago-lito authored 1 year ago
  
  ee09a8b2
- Start accumulating iterators from non-root nodes. · 83570784
  iago-lito authored 1 year ago
  
  83570784
- Orient children in downwards tree accumulators. · 8008fad7
  iago-lito authored 1 year ago
  
  8008fad7
- Retrieve left-descendance ancestor information. · 0917bbeb
  iago-lito authored 1 year ago
  
  0917bbeb
- Iterate up from node to root. · 10f264f5
  iago-lito authored 1 year ago
  
  10f264f5
- Test internal/external top species sorting. · 2c3624f1
  iago-lito authored 1 year ago
  
  2c3624f1
- Read three new parameters from config. · 9083db9f
  iago-lito authored 1 year ago
  9083db9f
- Receive init parameters from config + display lnL. · 7e46fe06
  iago-lito authored 1 year ago
  
  7e46fe06
- Calculate likelihood of the gene forest. · aaa6dd6b
  iago-lito authored 1 year ago
  
  aaa6dd6b
- Retrieve prior vs. actual branches lengths. · d1952a59
  iago-lito authored 1 year ago
  
  d1952a59
- Sketch model with various ILS/GF scenarios.. · 01885f60
  iago-lito authored 1 year ago
  01885f60
- Bump strip-ansi-escapes. · 74834be1
  iago-lito authored 1 year ago
  
  74834be1
- Use standard cargo layout for `src/bin/` folder. · 0da612d3
  iago-lito authored 1 year ago
  
  0da612d3
- Intern names into integer symbols. · 082a8959
  iago-lito authored 1 year ago
  082a8959
- Tree becomes generic over node 'payload' types. · a8a1ee2e
  iago-lito authored 1 year ago
  a8a1ee2e
- Filter out LCA(triplet, outgroup) ≠ root. · 829aaf8e
  iago-lito authored 2 years ago
  829aaf8e
- Iterate on all children *leaves* of given node. · 203a2b96
  iago-lito authored 1 year ago
  
  203a2b96
- Filtered version of root_to_leaves. · 2e7da630
  iago-lito authored 2 years ago
  
  2e7da630
- Preserve input file trees ordering. · afd95c46
  iago-lito authored 2 years ago
  
  afd95c46
- Trim branches lengths to not count root lengths. · fc6ef36c
  iago-lito authored 2 years ago
  
  fc6ef36c
- Iterative means become generic over numeric types. · 6ecf34b0
  iago-lito authored 2 years ago
  
  6ecf34b0
- Tree becomes generic over branch data type. · 3579c70c
  iago-lito authored 2 years ago
  
  3579c70c
- Move GeneTree to its own module. · f22c4c43
  iago-lito authored 2 years ago
  
  f22c4c43
- Minor fixes to satisfy Clippy. · 032e6655
  iago-lito authored 2 years ago
  
  032e6655
- Protect against species names absent from input. · 9c1ec534
  iago-lito authored 2 years ago
  
  9c1ec534
- Protect against empty outgroup. · 908ccb05
  iago-lito authored 2 years ago
  
  908ccb05
- Rename `gene_trees` module to `genes_forest`. · 128ecf92
  iago-lito authored 2 years ago
  
  128ecf92
- Update filter and output with pruned trees. · 9180f319
  iago-lito authored 2 years ago
  
  9180f319