Step-by-Step Guide

Linkage Disequilibrium Analysis with JMP^® Genomics 5.1

JMP Genomics provides both analytical tools for calculating linkage disequilibrium (LD) statistics and graphical displays of LD patterns across genomic regions. This step-by-step guide walks you through assessment of the marker properties of an oat genotype data set prior to performing linkage disequilibrium analysis and identification of representative tagSNPs for larger LD groups. You may use the link on this page to download the data sets and follow the detailed instructions in the guide to replicate this analysis in your copy of JMP Genomics 5.1.