pedprobr 0.6.0

Breaking changes

• pedprobr now depends on R 4.1 and pedtools 1.1.0.

• The deprecated argument loop_breakers has been completely removed (renamed to loopBreakers)

New features

• likelihood.ped() gains a new argument lump, which activates allele lumping. This is TRUE by default, and should remain so in most cases.

• Using theta correction in pedigrees with inbred founders now gives an error.

• The internal peelingProcess() now checks for unbroken loops in the pedigree. (Of interest for developers mainly.)

Bug fixes

• Fixed bug affecting likelihood computations with theta correction.

Other changes

• When calling MERLIN, the window-centric and unnecessary .exe extensions has been removed.

• Many examples have been rewritten in simpler code, taking advantage of pedtools::addMarker and the pipe |>.