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LTFGRS

LTFGRS is an R package that provides a unified interface to performseveral phenotype-based family genetic risk scores (FGRS) as well asfunctions to perform the required data preparation and managementsteps.

The implemented methods areLT-FH++,PA-FGRS, andKendler’s FGRS. Theprimary focus of the package is LT-FH++ and PA-FGRS. They share manysimilarities in their models, since they are both based on the sameunderlying liability threshold model with modifications. This packageallows users to pick and chose which elements of those methods they wantto use. Notable properties of the package are:

• Automatic identification of family members up to n’th degree.
• personalised thresholds for each included family that can accountfor:
  • age of diagnosis
  • censoring
  • cohort effects
  • sex
  • family-wise censoring
• mixture distribution to handle partially observed controls.

Installation

You can install the development version of LTFGRS from GitHubwith:

remotes::install_github("EmilMiP/LTFGRS")

You can install the LTFGRS from CRAN with:

install.packages("LTFGRS")

Documentation and Tutorials

Documentation and tutorials for the package can be found in thepkgdown site.