Genetic Marker Statistics

Click on a button corresponding to a genetic marker process. Refer to the table below for guidance.

Process	Choose this process for...
Phenotype Summary	Summarizing and displaying information about categorical and quantitative population phenotypes
Marker Properties	Exploring several properties of all markers in a data set, in detail, for quality control (QC) and/or selecting markers to be removed from the analysis
Missing Genotype by Trait Summary	Testing for significant differences in missing genotype proportions between cases and controls (or any two groups) for each individual marker
LD Block Creation	Creating blocks of consecutive SNPs based on those in strong linkage disequilibrium (LD) according to specified thresholds
Linkage Disequilibrium	Calculating various measurements of, and conducting an overall test for, linkage disequilibrium, between pairs of markers
LD tagSNP Selection	Using a binning algorithm to separate SNPs into bins, and identifying tagSNPs that can be used to represent all SNPs in a bin
Malecot LD Map	Describing and summarizing variations in patterns of linkage disequilibrium (LD) across large DNA regions

See Genetics for other subcategories.