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55 Open 210 Closed
55 Open 210 Closed
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Issues list

Add Dockerfile
#485 opened Apr 7, 2024 by davidrich27
@davidrich27
DAGStorage throws error where line references a line outside of range.
#479 opened Aug 10, 2023 by davidrich27
SubsplitDAG: Add map for quick lookup of parent and child nodes.
#478 opened Jul 25, 2023 by davidrich27
@davidrich27
TPEngine: Assign an edge's neighbors based on "edge heuristic" instead of "subsplit heuristic".
#471 opened Mar 7, 2023 by davidrich27
@davidrich27
2
TPEngine: Add Rescaling to Likelihood Computations
#462 opened Aug 12, 2022 by davidrich27
yet more iteration over unordered maps leading to inconsistent behavior
#455 opened Jul 9, 2022 by matsen
parsimony 2 Sankoff on DAG
#450 opened Jun 24, 2022 by tanviganapathy
@tanviganapathy
NNI Engine: Top-Pruning
#440 opened May 25, 2022 by davidrich27
@davidrich27 @chrisjenningsshaffer
5
SubsplitDAG: Export/Import Rimu-compatible JSON file
#431 opened Apr 21, 2022 by davidrich27
1
@davidrich27
NNI Engine: NNI Priors
#430 opened Apr 13, 2022 by davidrich27
@hrnasif @davidrich27
SubsplitDAG: Remove node pair.
#428 opened Apr 1, 2022 by davidrich27
1
@davidrich27
SubsplitDAG: Faster method for finding parents/children of new nodes.
#427 opened Apr 1, 2022 by davidrich27
@davidrich27
1
Fix Doctest issues with newer GCC compilers.
#421 opened Mar 17, 2022 by davidrich27
MrBayes Nexus tree parsing fails with an uninformative error
#406 opened Feb 5, 2022 by matsen
replace use of std::function with templates
#401 opened Jan 26, 2022 by matsen
@ognian-
Flesh out GitHub Actions CI
#361 opened Sep 2, 2021 by 4ment
1
@ognian- @davidrich27
4
Rename subsplit DAG elements
#350 opened Jul 31, 2021 by matsen
@davidrich27
2
Use the DAG in the SBN instances
#348 opened Jul 26, 2021 by matsen
@ognian-
9
Allow other clock models like relaxed clocks
#338 opened Mar 22, 2021 by 4ment
1
Refactor PLV handling to be more isolated and dynamic
#328 opened Feb 23, 2021 by matsen
4
Replace UnrootedPhyloGradient and RootedPhyloGradient with PhyloGradient; add flexible gradient requests
#324 opened Feb 15, 2021 by 4ment
Optimization of classical likelihood in GP
#322 opened Feb 6, 2021 by matsen
Further tests and code for TidySubsplitDAG
#321 opened Feb 5, 2021 by matsen
3 tasks
Rename RootedTree to TimeTree
#318 opened Feb 1, 2021 by matsen
Brent optimization tries unreasonable values
#317 opened Feb 1, 2021 by matsen
@hrnasif @davidrich27
2
ProTip! What’s not been updated in a month: updated:<2024-05-28.