Imports: ggplot2, ggpubr, stats, lme4, survey

variance across models. Also provides graphical methods for

Maintainer: Magnus Dehli Vigeland <magnusdv@medisin.uio.no>
Description: Parametric pedigree analysis based on the Elston-Stewart
algorithm. Singlepoint LOD scores and power analysis for
diallelic markers. Also includes functions for manipulating and

Description: Parametric linkage analysis and other likelihood-based
pedigree analyses based on the Elston-Stewart algorithm,
including singlepoint LOD scores, power analysis and various
marker genotype distributions. Multipoint analysis is provided
through a convenient MERLIN wrapper. Includes many utility
functions for creating, manipulating and plotting pedigrees,
SystemRequirements: For the MERLIN wrapper, MERLIN from
and pointed to in the PATH environment variable.

including singlepoint LOD scores, power analysis and
computation of marker genotype distributions. Multipoint
analysis is provided through a convenient MERLIN wrapper.
Includes many utility functions for creating, manipulating and
plotting pedigrees, markers and linkage results.
SystemRequirements: For the MERLIN wrapper, MERLIN
(www.sph.umich.edu/csg/abecasis/merlin) must be installed and
pointed to in the PATH environment variable.

Description: Parametric linkage analysis and other likelihood-based pedigree analyses based on the Elston-Stewart algorithm, including singlepoint LOD scores, power analysis and computation of marker genotype distributions. Multipoint analysis is provided through a convenient MERLIN wrapper. Includes many utility functions for creating, manipulating and plotting pedigrees, markers and linkage results.

Imports: assertthat, kinship2, graphics, maxLik, stats, utils

Title: Parametric Linkage and Other Pedigree Analysis in R
Description: A suite of tools for analysing pedigrees with marker data, including parametric linkage analysis, forensic computations, relatedness analysis and marker simulations. The core of the package is an implementation of the Elston-Stewart algorithm for pedigree likelihoods, extended to allow mutations as well as complex inbreeding. Features for linkage analysis include singlepoint LOD scores, power analysis, and multipoint analysis (the latter through a wrapper to the MERLIN software). Forensic applications include exclusion probabilities, genotype distributions and conditional simulations. Data from the Familias software can be imported and analysed in paramlink. Finally, paramlink offers many utility functions for creating, manipulating and plotting pedigrees with or without marker data (the actual plotting is done by the kinship2 package).