XWAS

A software package to single-marker and gene-based analyses of X chromosome. It can perform various statistical tests, such as the standard test between a single nucleotide polymorphism (SNP) and disease risk, a test for a differential effect of a SNP on disease between males and females, motivated by X-inactivation, a test for higher variance of a trait in heterozygous females as compared with homozygous females, and for all tests, a version that allows for combining evidence from all SNPs across a gene.