GRR (Graphical Representation of Relationships) is a Windows-based application for detecting pedigree errors via graphically inspecting the distribution for marker allele sharing among pairs of family members or all pairs of individuals in a study.
MERLIN (multipoint engine for rapid likelihood inference ) uses sparse trees to represent gene flow in pedigrees and is one of the fastest pedigree analysis packages around. it performs rapid haplotyping, genotype error detection and affected pair linkage analyses and can handle more markers than other pedigree analysis packages.
PEDSTATS is a handy tool for quick validation and summary of any pair of pedigree (.ped) and data (.dat) files.PEDSTATS produces summary statistics and basic quality assessments for gene-mapping data, accommodating either pedigree or case-control datasets.
LAMP (Linkage & Association Modeling for Pedigrees) uses a maximum likelihood model to extract information on genetic linkage and association from samples of unrelated individuals, sib pairs, trios and larger pedigrees (Li et al, 2005; Li et al, 2006). It provides estimates of genetic model parameters and powerful tests of association in settings where population stratification is not a concern.
PedVizApi is a Java Api for the visual analysis of large and complex pedigrees. It provides all the necessary functionality for the interactive exploration of extended genealogies. Available packages are mostly focused on a static representation or cannot be added to an existing application; the goal of this open-source library is to provide an application program interface that enables the efficient construction of visual analytic applications for the analysis of family based data.