gaynorr/AlphaSimR

Issues

• Add link to the on-line course in pkgdown

  #193 opened 5 months ago by gregorgorjanc
  0

• Combining populations drops EBVs if one population does not have them

  #191 opened 5 months ago by gregorgorjanc
  2

• Write vignette on how to modify runMacs() and how to use other simulators for founders

  #165 opened a year ago by gregorgorjanc
  3

• Add a bit of genomic intro to the basic vignette

  #129 opened 2 years ago by gregorgorjanc
  3

• Inconsistent behaviour when merging pop and a NULL pop

  #190 opened 5 months ago by gregorgorjanc
  3

• switchTrait() introduces NA values in VarE

  #188 opened 6 months ago by irenedecarlos
  2

• Check user interrupt

  #137 opened 8 months ago by maxecoulter
  3

• Website: point to Owen's "mechanistic model" simulation

  #179 opened 10 months ago by gregorgorjanc
  1

• Liability-Threshold Model

  #178 opened a year ago by gaynorr
  0

• Provide more informative SimParam errors

  #177 opened a year ago by gregorgorjanc
  0

• Enable passing function or misc slots to the use argument in selection functions

  #173 opened a year ago by gregorgorjanc
  1

• Import 1segSite haplo

  #175 opened a year ago by david20011999
  3

• Implement tree sequence

  #126 opened 2 years ago by gregorgorjanc
  4

• Sync stdpopsim & AlphaSimR runMaCS() parameters of Holstein

  #164 opened a year ago by gregorgorjanc
  2

• Develop repository of Breeding program templates

  #125 opened 2 years ago by gregorgorjanc
  0

• Vignette for using misc

  #159 opened a year ago by gaynorr
  2

• Flexibility to add extra slot

  #134 opened 2 years ago by mab658
  4

• Consider having genParam write to popMisc

  #170 opened a year ago by gaynorr
  2

• We need to speed up setMisc and getMisc

  #107 opened a year ago by gregorgorjanc
  15

• Add function to create empty MultiPop

  #169 opened a year ago by gregorgorjanc
  0

• Write vignette on how to import data

  #124 opened 2 years ago by gregorgorjanc
  1

• Convert Genetic Maps

  #163 opened a year ago by gaynorr
  0

• Expand the MultiPop functionality

  #120 opened 2 years ago by gregorgorjanc
  7

• Expanding GxE Modelling

  #150 opened a year ago by gaynorr
  1

• Integrate altAddTraitAD

  #140 opened a year ago by gaynorr
  0

• SelectInd(): definition of eligible individuals is problematic (full simulation VS simulation+data)

  #138 opened a year ago by AudreyAAMartin
  2

• potential bug with writeRecords

  #154 opened a year ago by poca87
  5

• Add popMisc

  #160 opened a year ago by gaynorr
  1

• Expand getPed() with a recursive argument

  #119 opened 2 years ago by gregorgorjanc
  1

• Sample SNP array markers with ascertainment bias by default

  #117 opened 2 years ago by gregorgorjanc
  2

• Get AlphaSimR onto R universe

  #158 opened a year ago by gregorgorjanc
  0

• Add rate parameter to gamma distribution for QTL effects

  #156 opened a year ago by gregorgorjanc
  2

• Rename or alias setPheno() to simPheno()

  #152 opened a year ago by gregorgorjanc
  0

• Faster multitrait simulations

  #151 opened a year ago by gaynorr
  0

• makeCross2 and ID problem

  #142 opened a year ago by AudreyAAMartin
  6

• ped as vector in 'importInbredGeno' and 'importHaplo'

  #141 opened a year ago by gaynorr
  1

• Write GenomicSelection vignette

  #123 opened 2 years ago by gregorgorjanc
  1

• sortPed function bug

  #110 opened 2 years ago by AudreyAAMartin
  7

• pedigreeCross fails with half founders

  #131 opened 2 years ago by AudreyAAMartin
  3

• Fix pedigreeCross

  #130 opened 2 years ago by AudreyAAMartin
  1

• Offer conversions from one to another genetic map

  #128 opened 2 years ago by gregorgorjanc
  0

• Think about formula interface for phenotypes

  #127 opened 2 years ago by gregorgorjanc
  0

• Write QuanGen vignette

  #122 opened 2 years ago by gregorgorjanc
  0

• Revise help pages

  #121 opened 2 years ago by gregorgorjanc
  0

• Report realised genic variances (possibly also expected?)

  #113 opened 2 years ago by gregorgorjanc
  3

• Get AlphaSimR internet domain

  #96 opened 2 years ago by gregorgorjanc
  1

• Issues with IBD tracking

  #114 opened 2 years ago by janaobsteter
  2

• Better GE rate simulation?

  #108 opened 2 years ago by jamonterotena
  3

• Report if user-provided covariance is not positive definitely

  #98 opened 2 years ago by gregorgorjanc
  1

• Bug with new residual covariances

  #101 opened 2 years ago by gregorgorjanc
  3