STATISTICAL GENETICS Gene Mapping Through Linkage and Association

Online resources

Back to Online Material

URLs for freely available software, data and other online resources dedicated to genetic linkage and association analysis:

General statistical software and resources
Mx
Package for Structural Equation Modelling.
Mx scripts library
A compilation of Mx scripts for genetic analyses.
The R Project for Statistical Computing
Open source statistical software.
Rockefeller Linkage Library
Web resources for genetic linkage analysis.
Linux for windows
Cygwin
A Linux-like environment for Windows.
Data checking and power calculations
GRR
Graphical Representation of [pedigree] Relationships.
PEDSTATS
A program to summarize the contents of pedigree files.
GPC
A website that provides automated power analyses for common linkage and association analyses.
Quanto
Power calculator for association studies incorporating gene-gene and gene-environment interactions.
CaTS
Power calculation program for multistage case-control genome association analysis.
Linkage Software
MERLIN
A user-friendly program to perform common pedigree genetic analyses, including linkage and association.
MERLIN-regress
Quantitative trait regression-based linkage analyses.
Association analysis
FBAT/PBAT
Programs for general family-based tests of association.
QTDT
Interface to perform family-based analyses for quantitative and discrete traits.
Haploview
A program to perform haplotype analysis and related association tests.
WHAP
A program to test SNP haplotype associations with qualitative and quantitative traits.
GWAVA
Software platform tailored for genome association analysis.
PLINK
Open-source whole genome association analysis toolset.
Large Scale Genetic Projects
International HapMap project
A public resource of human haplotypic variation.
The Genetic Association Information Network program
A public-private partnership established to understand the genetic factors influencing risk for complex diseases.
The Wellcome Trust Case Control Consortium
A collaboration of leading human geneticists to identify genetic variants that influence the risk of eight common diseases.