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bioDS
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beast-phylonco
A BEAST2 package for single-cell cancer evolution
GNU Lesser General Public License v2.1
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implement LocalClockToBeast
#62
EvaLiyt
opened
3 hours ago
0
Change to setup IntelliJ manually
#61
walterxie
closed
1 week ago
0
Change to setup IntelliJ manually
#60
walterxie
opened
1 week ago
0
Get warnings when running lphy scripts
#59
yxu927
opened
1 month ago
0
Add Viewer for read count data in LPhyStudio
#58
kche309
opened
2 months ago
0
Add UpDownOperator to PopulationFunction
#57
walterxie
opened
2 months ago
1
Implement read count model for LPhy simulation
#56
kche309
opened
2 months ago
0
LPhyBeast for gompertz model
#55
yxu927
opened
2 months ago
0
done Nucleotide Helper methods test
#54
EvaLiyt
closed
4 months ago
0
mv the NucleotideGenotypeHelper into PhasedGenotype
#53
EvaLiyt
closed
4 months ago
0
finish the NucleotideGenotypeHelper and related test
#52
EvaLiyt
closed
4 months ago
0
optimize the NucleotideGenotypeHelper and related test
#51
EvaLiyt
closed
4 months ago
0
debug in NucleotideGenotypeHelper
#50
EvaLiyt
closed
4 months ago
0
update NucleotideGenotypeHelper and related tests
#49
EvaLiyt
closed
4 months ago
0
Create API class to define the mapping between PhasedGenotypeState and NucleotideState
#48
walterxie
opened
4 months ago
0
add unit tests for haploid and homozygous functions
#47
EvaLiyt
closed
4 months ago
0
update ReadMe file
#46
EvaLiyt
closed
4 months ago
0
Homozugous and Haploid Function Update
#45
EvaLiyt
closed
4 months ago
0
Test branch
#44
EvaLiyt
closed
5 months ago
0
Lphy1.5
#43
kche309
closed
5 months ago
0
Migration to LPhy 1.5 and BEAST 2.7.6
#42
walterxie
closed
2 months ago
0
Update readme for beast v2.7
#41
kche309
closed
1 year ago
0
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
0
Migration to BEAST 2.7.3
#38
walterxie
closed
5 months ago
0
Merge branch Beagle with error
#37
kche309
closed
1 year ago
0
Question Regarding Effective Population Size
#36
SriRaj34
opened
1 year ago
2
Update LPhy doc #34
#35
walterxie
closed
1 year ago
0
Update LPhy doc
#34
walterxie
closed
1 year ago
1
Fix gt16 error model annotations
#33
kche309
closed
1 year ago
0
GT16ErrorModel doesn't have the narrative annotations
#32
walterxie
closed
1 year ago
2
LPhyStudio 1.2.0 error when loading script -- lphy.util.IOUtils class not found
#31
kche309
closed
1 year ago
2
Lphy1.3
#30
walterxie
closed
1 year ago
0
Migrate to LPhy 1.3.1 and LPhyBeast 0.4.2
#29
walterxie
closed
1 year ago
5
Gradle build issue
#28
kche309
closed
1 year 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
subproject names are confusing
#20
walterxie
closed
2 years ago
3
Add templates build
#19
kche309
closed
2 years ago
0
Added example methylation fasta file
#18
kche309
closed
2 years ago
0
Beauti templates
#17
kche309
closed
2 years ago
0
upgrade to java 17
#16
walterxie
closed
2 years ago
0
Removing printing, tests should be silent
#15
J-Moravec
closed
2 years ago
0
Gradle migration
#14
walterxie
closed
2 years ago
0
Fixes TreeLikelihoodWithError to use java implementation
#13
kche309
closed
2 years ago
0
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