pedprobr 0.4.0

Breaking changes

• likelihood() has been refactored, and the functionality for calculating the likelihood of two linked markers is moved to a separate function, likelihood2().

New features

• Theta correction is implemented in likelihood calculations, through the argument theta of likelihood().

• merlin() and likelihoodMerlin() have been overhauled.

• A new function checkMerlin() checks if MERLIN is installed and available.

• merlin() now has an argument linkageMap for describing linked markers.

• likelihoodMerlin() gains arguments logbase (for log output) and rho (as a simpler alternative to linkageMap).

• New function lumpAlleles().