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matsengrp
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historydag
https://matsengrp.github.io/historydag
GNU General Public License v3.0
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Binary tree resolutions and fast sampling
#84
willdumm
closed
7 months ago
0
Docs improvements
#83
willdumm
closed
8 months ago
0
Ambiguous Protobuf Support
#82
willdumm
closed
8 months ago
0
IntState vs FloatState fix for RF distances
#81
willdumm
closed
9 months ago
0
One Sided RF distances
#80
willdumm
closed
9 months ago
1
graphviz dot file output improvements
#79
willdumm
closed
11 months ago
0
Wd adjusted node probs
#78
willdumm
closed
1 year ago
0
_history_method error message should correctly name wrapped method
#77
willdumm
opened
1 year ago
0
One sided RF distance
#76
clarisw
closed
9 months ago
1
minor improvements in parsimony_utils.py
#75
harryrichman
closed
1 year ago
0
add a few more tests for recent changes
#74
willdumm
closed
1 year ago
0
Jukes cantor likelihood
#73
willdumm
closed
1 year ago
2
fix bug with parsimony for ambiguous leaf sequences
#72
willdumm
closed
1 year ago
0
updating sankoff to accommodate non-singleton-base transition models
#71
marybarker
closed
1 year ago
0
weighting edges of the DAG using Jukes-Cantor
#70
matsen
opened
1 year ago
1
Updating docstrings
#69
marybarker
closed
1 year ago
0
reorganize dag.py
#68
willdumm
closed
1 year ago
0
Split dag.py, improved tests, and mean weights
#67
willdumm
closed
1 year ago
1
reorganize dag.py
#66
willdumm
closed
1 year ago
0
Generalized node support
#65
willdumm
closed
1 year ago
2
HistoryDag subclass defaults
#64
willdumm
closed
1 year ago
1
Add beast tree loader
#63
willdumm
closed
1 year ago
1
HistoryDag subclass defaults
#62
willdumm
closed
1 year ago
1
Implemented Estimate for RF Diameter
#61
clarisw
closed
1 year ago
0
Beast tree loading
#60
willdumm
closed
1 year ago
2
fix compact genome mutation and add label change
#59
willdumm
closed
1 year ago
0
Estimate RF distance diameter
#58
willdumm
opened
1 year ago
0
initial commit for adding alternate field name option
#57
marybarker
closed
1 year ago
1
Count optimal histories
#56
willdumm
closed
1 year ago
0
Sankoff with multiple criteria
#55
marybarker
opened
1 year ago
1
altered average_pairwise_rf_distance to avoid divide-by-zero in the c…
#54
marybarker
closed
1 year ago
1
Add average pairwise RF distance method
#53
willdumm
closed
1 year ago
0
Implement sum pairwise rf distance
#52
willdumm
closed
1 year ago
0
Add HistoryDagFilter Object
#51
willdumm
closed
1 year ago
1
Expand Quickstart
#50
willdumm
closed
1 year ago
0
docs improvements
#49
willdumm
closed
1 year ago
0
various docs todos from the perspective of a naive user
#48
matsen
opened
1 year ago
1
Create subclass for ambiguous samples
#47
willdumm
closed
1 year ago
0
Wd general leaf path dag
#46
willdumm
closed
1 year ago
0
Method tags aren't parsed correctly in docs
#45
matsen
closed
1 year ago
0
Quickstart suggestions
#44
matsen
closed
1 year ago
0
does historydag implicitly assume that a tree's sequences are named `sequence`?
#43
matsen
closed
1 year ago
4
Consider how to load in BEAST trees with compact descriptions of a history
#42
matsen
opened
1 year ago
9
Implement Sum RF Distances
#41
clarisw
closed
1 year ago
4
Various bug fixes
#40
willdumm
closed
1 year ago
0
Implement Sum RF distance
#39
willdumm
closed
1 year ago
0
Support for leaf labels with ambiguities
#38
marybarker
opened
1 year ago
2
MADAG protobuf support
#37
willdumm
closed
1 year ago
1
Trimming weight range
#36
clarisw
closed
1 year ago
0
adding new sequences to a pre-existing DAG (no relabeling)
#35
marybarker
closed
1 year ago
1
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