bioDS beast-phylonco issues

bioDS / beast-phylonco

A BEAST2 package for single-cell cancer evolution

GNU Lesser General Public License v2.1

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issues

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Change the default value of 'autoOptimize' to true

#70 EvaLiyt opened 1 week ago
0
Release 1.2.1

#69 walterxie opened 2 weeks ago
0
LPhy Studio freezes when resampling some scripts

#68 kche309 opened 1 month ago
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Version management for dependencies: add "atmost="

#67 walterxie opened 1 month ago
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Release 1.2.0

#66 walterxie closed 2 weeks ago
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Merge Stochastic Variable Selection lphybeast

#65 yxu927 closed 4 months ago
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Implement stochastic variable selection for population functions

#64 yxu927 opened 4 months ago
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Maven

#63 walterxie closed 4 months ago
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implement LocalClockToBeast

#62 EvaLiyt closed 3 months ago
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Change to setup IntelliJ manually

#61 walterxie closed 4 months ago
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Change to setup IntelliJ Maven

#60 walterxie closed 3 months ago
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Get warnings when running lphy scripts

#59 yxu927 opened 6 months ago
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Add Viewer for read count data in LPhyStudio

#58 kche309 opened 6 months ago
0
Add UpDownOperator to PopulationFunction

#57 walterxie opened 6 months ago
1
Implement read count model for LPhy simulation

#56 kche309 opened 6 months ago
0
LPhyBeast for gompertz model

#55 yxu927 opened 7 months ago
0
done Nucleotide Helper methods test

#54 EvaLiyt closed 8 months ago
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mv the NucleotideGenotypeHelper into PhasedGenotype

#53 EvaLiyt closed 8 months ago
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finish the NucleotideGenotypeHelper and related test

#52 EvaLiyt closed 8 months ago
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optimize the NucleotideGenotypeHelper and related test

#51 EvaLiyt closed 8 months ago
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debug in NucleotideGenotypeHelper

#50 EvaLiyt closed 8 months ago
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update NucleotideGenotypeHelper and related tests

#49 EvaLiyt closed 8 months ago
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Create API class to define the mapping between PhasedGenotypeState and NucleotideState

#48 walterxie opened 8 months ago
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add unit tests for haploid and homozygous functions

#47 EvaLiyt closed 8 months ago
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update ReadMe file

#46 EvaLiyt closed 8 months ago
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Homozugous and Haploid Function Update

#45 EvaLiyt closed 8 months ago
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Test branch

#44 EvaLiyt closed 9 months ago
0
Lphy1.5

#43 kche309 closed 9 months ago
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Migration to LPhy 1.5 and BEAST 2.7.6

#42 walterxie closed 7 months ago
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Update readme for beast v2.7

#41 kche309 closed 1 year ago
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B2.7

#40 walterxie closed 1 year ago
0
The data type does not show the proper value in lphy studio

#39 walterxie closed 1 year ago
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Migration to BEAST 2.7.3

#38 walterxie closed 9 months ago
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Merge branch Beagle with error

#37 kche309 closed 1 year ago
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Question Regarding Effective Population Size

#36 SriRaj34 opened 1 year ago
2
Update LPhy doc #34

#35 walterxie closed 1 year ago
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Update LPhy doc

#34 walterxie closed 2 years ago
1
Fix gt16 error model annotations

#33 kche309 closed 2 years ago
0
GT16ErrorModel doesn't have the narrative annotations

#32 walterxie closed 2 years ago
2
LPhyStudio 1.2.0 error when loading script -- lphy.util.IOUtils class not found

#31 kche309 closed 2 years ago
2
Lphy1.3

#30 walterxie closed 2 years ago
0
Migrate to LPhy 1.3.1 and LPhyBeast 0.4.2

#29 walterxie closed 2 years ago
5
Gradle build issue

#28 kche309 closed 2 years ago
3
Added genotype codes file

#27 kche309 closed 2 years ago
0
Update GT16ErrorModelToBEAST to use TreeLikelihoodWithErrorFast

#26 kche309 closed 2 years ago
0
Gradle tasks not loaded for lphybeast in Intellij #24

#25 walterxie closed 2 years ago
0
Gradle tasks not loaded for lphybeast in Intellij

#24 kche309 closed 2 years ago
0
LPhyBEASTExt does not require no-args constructor anymore

#23 walterxie closed 2 years ago
0
Port PMD error model from BEAST1

#22 kche309 opened 2 years ago
3
Rename subprojects

#21 walterxie closed 2 years ago
0