Skip to main content

Utils.jl

PopGenSims.jl/src/Utils.jl​

📦 not exported🟪 exported by PopGenSims.jl

🟪 append!​

append!(data::PopData, data2::PopData)

Add the rows of data2 to the end of data. This will add the samples present in the second PopData object to the first PopData object (mutating it). Note that this is a simple appending, and you risk corrupting your PopData if the two PopData objects do not have identical loci.

Example

julia> cats = @nancycats
PopData{Diploid, 9 Microsatellite Loci}
  Samples: 237
  Populations: 17

julia> purrfect_pairs = cross(cats, "N200", "N7", generation = "F1")
PopData{Diploid, 9 Microsatellite Loci}
  Samples: 100
  Populations: 1

julia> append!(cats, purrfect_pairs);

julia> cats
PopData{Diploid, 9 Microsatellite Loci}
  Samples: 337
  Populations: 18

🟪 append​

append(data::PopData, data2::PopData)

Add the rows of data2 to the end of data. This will combine the samples present in both PopData objects and return a new PopData object. Note that this is a simple appending, and you risk corrupting your PopData if the two PopData objects do not have identical loci.

Example

julia> cats = @nanycats
PopData{Diploid, 9 Microsatellite Loci}
  Samples: 237
  Populations: 17


julia> purrfect_pairs = cross(cats, "N200", "N7", generation = "F1")
PopData{Diploid, 9 Microsatellite Loci}
  Samples: 100
  Populations: 1

julia> merged_cats = append(cats, purrfect_pairs)
PopData{Diploid, 9 Microsatellite Loci}
  Samples: 337
  Populations: 18

📦 allele_pool​

allele_pool(locus::T) where T <: GenoArray
allele_pool(data::PopData)

📦 simulate_sample​

simulate_sample(alleles::Dict{String,NTuple}, loc::Vector{String}; ploidy::Int)

Using a global allele pool given by a Dict{loci,alleles} and a list of loci (loc), simulate an individual with a given ploidy. Returns a Vector of genotypes.

Example

julia> cats = @nancycats ;
julia> loc, alleles = allele_pool(cats) ;
julia> simulate_sample(alleles, loc, ploidy = 2)
9-element Array{Array{Int16,1},1}:
 [139, 129]
 [146, 146]
 [145, 141]
 [126, 126]
 [150, 148]
 [148, 140]
 [185, 199]
 [91, 113]
 [208, 208]

📦 feature_req​

feature_req

Returns the text: "Please open an Issue or Pull Request on https://www.github.com/pdimens/PopGenSims.jl if you would like this feature implemented"