v2.13.3

2.13.3 Released 4 June 2015

New

• Added LDtL(), a function to take the LDL' Cholesky decomposition of a matrix (not currently exported).
• Added founderLine() which traces all individuals back to either the paternal or maternal founder
• grfx() now has a new argument to allow user to supply the standard normal deviates instead of generating them within the function.
  • extended the warn argument to apply to the warning when incidence = NULL
  • updated grfx.Rd with an example illustrating the stdnorms argument
  • added ... argument to drfx() so that arguments for the internal use of grfx() can be supplied to drfx().
• argument now allows specified prefix for all identities in a pedigree generated from simPedHS() or simPedDFC().
• argument added that specifies output format of ggcontrib(), default is "matrix"

Small changes

• removed 'asreml' from suggests in the package DESCRIPTION file.
• changed pcc() return FALSE if the object (asreml) shows the log-likelihood did not converge
• added silent = FALSE agrument to pcc() so that the default can be changed to not show messages
  • helpful in simulations where a lot of output would be printed on screen
• changed the signs associated with likelihood ratio test statistics, etc.
  • changed signs in proLik() so that profile likelihoods should be "valleys" (instead of "hills", as they were in versions previous to 2.13.3)