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GeneralUtils.jl

PopGenCore.jl/src/Utils/GeneralUtils.jl​

📦 not exported🟪 exported by PopGenCore.jl🔵 exported by PopGen.jl

🟪🔵 Base.copy​

Base.copy(data::PopData)

🟪🔵 Base.size​

Base.size(data::PopData)

🟪🔵 Base.sort​

Base.sort(x::NTuple{N,T}) where N where T <: Signed

Sort the integers within a Tuple and return the sorted Tuple.

🟪 convertcoord​

convertcoord(coordinate::String)

Takes non-decimal-degree format as a String and returns it as a decimal degree Float32. Can be broadcasted over an array of coordinate strings to convert them.

Formatting requirements​
  • Coordinates as a String separated by spaces ("11 43 41") or colons ("11:43:41")
  • Must use negative sign ("-11 43.52") or single-letter cardinal direction ("11 43.52W")
  • Missing data should be coded as the string "missing" (can be accomplished with replace!())
  • Can mix colons and spaces (although it's bad practice)

Example

julia> convertcoord("-41 31.52")
-41.5253f0
julia> convertcoord.(["-41 31.52", "25 11:54S"])
2-element Array{Float32,1}:
-41.5253
-25.1983

🟪🔵 dropmonomorphic​

dropmonomorphic(data::PopData; silent::Bool = false)

Return a PopData object omitting any monomorphic loci. Will inform you which loci were removed.

🟪🔵 dropmonomorphic!​

dropmonomorphic!(data::PopData; silent::Bool = false)

Edit a PopData object in place by omitting any monomorphic loci. Will inform you which loci were removed.

🟪🔵 dropmultiallelic(data::PopData)​

dropmultiallelic

Return a PopData object omitting loci that are not biallelic.

🟪🔵 dropmultiallelic!(data::PopData)​

dropmultiallelic!

Edit a PopData object in place, removing loci that are not biallelic.

📦 truncatepath​

truncatepath(text::String)