adegenet: adegenet version 2.0.1

Adegenet version 2.0.1

This version contains a few new features, speedups, and bug fixes

• Hs() is now much faster and will scale better for large number of loci

• Hs.test() allows for testing differences in expected heterozygosity between two groups of individuals

• strata tutorial is now available via adegenetTutorial(which="strata")

• repool can now handle objects with no population information, and can return a list of repooled genind (argument 'list' defauling to FALSE)

• read.fstat() can now handle missing data coded by any number of "0"

• scatter.dapc() function can now label individuals using orditorp() function from vegan package, which takes care of overlapping (See issue #100)

• df2genind() is now faster at handling missing data (See issue #114)

• the summary method has better formatting

• Hs() no longer returns NaN if one locus has not been typed; instead, computations are done using all available loci

• adegenetTutorial() now opens up-to-date tutorials

• subsetting genlight objects now treats missing data appropriately when given logical, character, or negative subscripts. (See issue #83)

• fixed occasional spurious warning about duplicated individual labels in df2genind()

• fixed issues with mis-placed missing data in df2genind() when samples were labeled with numbers (See issue #96)

• frequencies can now be obtained from P/A genpop objects (See issue #105)

• Windows no longer throws an error with as.genlight() (See issue #109)

• read.genpop() now returns individual names (See issue #117)