Genome-wide analysis

• Single-point case-control association analysis using Fisher-exact test
• Family-based association tests using the transmittance disequilibrium test (TDT) and/or the sib-ship transmittance test (S-TDT)
• DNA copy number polymorphism (CNP) analysis

Haplotype tool

• Multipoint haplotype association analysis based on an association test for uncertain haplotypes derived using the expectation maximum (EM) algorithm
• Multipoint haplotype construction from genotypes using Clark’s algorithm
• Linkage disequilibrium (LD) analysis
• Advanced filtering, sorting coloring of data based on marker yield, heterozygosity, haplotype similarity, inheritance errors, etc.
• Specialized viewers for presenting association and LD results in tabular as well as graphical form