Description

IMPUTE is a tool for genotype imputation in genome-wide association studies and fine-mapping studies based on a dense set of marker data (such as HapMap). Other genome-wide association tools available in the same package include:

• CHIAMO - a genotype calling algorithm for multi-cohort studies
• GTOOL - a program for (a) generating subsets of genotype data, and (b) converting genotype data between the PED file format and the FILE FORMAT used by SNPTEST and IMPUTE.
• SNPTEST - a program for Frequentist and Bayesian tests of SNP association with binary (case-control) and quantitative phenotypes that takes genotype uncertainty into account
• HAPGEN - a program to simulate case control datasets at linked SNP markers conditional upon a set of known haplotypes

Availability

Installed on the cluster.

More information

For more information about using these tools, contact Tracey Weiler, Rheumatology.