genetest: efficient genetic association analysis¶
Introduction¶
The genetest module provides an easy and efficient way of performing
genetics association analysis. It uses geneparse to efficiently parse
genetic data files (using indexes) of many commonly used format (Plink
binary, IMPUTE2, BGEN and VCF files) and can analyze the data using
linear and logistic regressions, mixed linear model (repeated measurements) or
survival regression (Cox Proportional Hazards). It allows for interactions and
multiple co-variables.
A command line interface tool was also added to facilitate genome-wide association studies using a configuration file (YAML format) to describe the analysis (genotypes, phenotypes and statistical model).