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gaynorr
/
AlphaSimR
R package for breeding program simulations
https://gaynorr.github.io/AlphaSimR/
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Explore adding tree sequences to AlphaSimR
#55
gregorgorjanc
closed
2 years ago
1
Show in SimParam on how to access pedigree and recHist
#53
gregorgorjanc
opened
2 years ago
4
Added isFemale() and isMale() utility functions
#52
gregorgorjanc
closed
2 years ago
0
Added setMisc and getMisc
#51
gregorgorjanc
closed
2 years ago
0
Write a function that simulates gametes so we can generate pollen, ova, sperm, ...
#48
gregorgorjanc
closed
2 years ago
1
Fixing #37 and partially also #38
#47
gregorgorjanc
closed
2 years ago
4
warning message when correlation matrix is not positive semi-definite
#44
Prof-ThiagoOliveira
closed
2 years ago
2
Bug when running a multi-trait breeding programme: example using correlation matrix for additive genetic values
#43
Prof-ThiagoOliveira
closed
2 years ago
1
Selection of id in pop object is having issues since update 1.1.2
#42
LucianoRogerio
closed
2 years ago
2
Question about pop@gxe
#41
marcio-resende
closed
2 years ago
1
Devel
#40
gaynorr
closed
2 years ago
0
manAddTrait() confusion with LociMap-class
#39
ruthkepstein
closed
2 years ago
8
Bug: reduceGenome(), doubleGenome(), and mergeGenome() don't pass info to global pedigree due to incomplete newPop() call
#38
gregorgorjanc
closed
2 years ago
3
Bug: reduceGenome() does not work in combination with SP$setTrackRec()
#37
gregorgorjanc
closed
2 years ago
4
Turn on mutations by default when generating new individuals?
#36
gregorgorjanc
closed
2 years ago
2
Simulate sex chromosome and genetically determine sex
#35
gregorgorjanc
opened
2 years ago
3
SP$recHist
#34
joetabet
closed
2 years ago
12
Exporting getNumThreads() so other packages can use it & adding docs
#33
gregorgorjanc
closed
2 years ago
0
Added is*() functions for all classes - to ease programming elsewhere
#31
gregorgorjanc
closed
2 years ago
0
Reduce nInd argument value on the fly if there is less individuals than requested
#30
gregorgorjanc
closed
2 years ago
1
addTraitAG (error with only 1 QTL)
#29
haono
closed
2 years ago
2
pullIbdHaplo: change return doc
#28
gregorgorjanc
closed
2 years ago
0
Extract only specified loci in pullX() functions
#27
gregorgorjanc
closed
2 years ago
1
Add bound-checks (negative values) on arguments such as nInd or document the behaviour of such cases?
#26
gregorgorjanc
closed
2 years ago
1
Rename pullFunctions to getFunctions for haplotypes and genotypes and similarly for pheno(), ...?
#25
gregorgorjanc
closed
2 years ago
0
Add trait names to ease downstream scripting
#24
gregorgorjanc
closed
2 years ago
1
parametric H2 bigger than 1 upon selection
#23
marcio-resende
closed
2 years ago
3
AlphaSimR:::getNumThreads and runMacs: Error function 'Rcpp_precious_remove' not provided by package 'Rcpp'
#22
gregorgorjanc
closed
2 years ago
2
isDH in newPop() can be confusing
#21
gregorgorjanc
closed
2 years ago
3
Devel
#20
gaynorr
closed
3 years ago
0
Determine the historical population to create the base population
#19
bkenayati
closed
2 years ago
1
Founder population from AlphaSimR
#18
rthapa1
closed
2 years ago
5
genParam() fails when pop has just one individual
#17
gregorgorjanc
closed
2 years ago
2
Devel
#16
gaynorr
closed
3 years ago
0
Random sampling from class "Pop"
#15
rthapa1
closed
3 years ago
0
Consider adding arguments trait and ind to setPheno()?
#14
gregorgorjanc
closed
2 years ago
2
Changing dominance level for trait
#13
rthapa1
closed
2 years ago
4
estimation of allele frequency from genotype matrix derived from autotetraploid species
#12
rthapa1
closed
2 years ago
2
randCross giving NA pheno
#11
rthapa1
closed
2 years ago
2
Cite MaCS in runMacs()
#10
gregorgorjanc
closed
2 years ago
1
Trouble creating new population using custom genetic data
#9
juliendiot42
closed
2 years ago
4
AlphaSimR
#8
rthapa1
closed
2 years ago
9
Devel
#7
gaynorr
closed
3 years ago
0
Devel
#6
gaynorr
closed
3 years ago
0
Alt track rec
#5
gaynorr
closed
3 years ago
0
Add runStdpopsim()
#4
gregorgorjanc
closed
2 years ago
0
Document species and demography models in runMacs
#3
gregorgorjanc
closed
2 years ago
2
Cite the AlphaSimR paper and provide citation
#2
gregorgorjanc
closed
3 years ago
2
Devel
#1
gaynorr
closed
3 years ago
0
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