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Genetics > Marker Statistics > The Marker Statistics Report and Options
Publication date: 05/05/2023

The Marker Statistics Report and Options

The Marker Statistics report enables you to explore several properties of all the biallelic markers in a data set. This process calculates various single marker measures, as well as various measurements of linkage disequilibrium.

The Marker Statistics red triangle menu contains the following options:

Levels Table

Select this option to view the Additional Example of the Marker Statistics Platform. The Levels table indicates the number of genotypes observed for each marker.

Counts Table

Select this option to view the Counts Table. The Counts table indicates the number of individuals exhibiting each genotype for each marker.

Result Table

Select this option to view the Result Table.

PValue Plot

Select this option to view the Hardy-Weinberg Equilibrium FDR Logworth Plot.

LD Decay Plot

Select this option to view the LD Decay Plot.

Note: This option is available when one or more With Markers are specified.

Save Result Table

Use this option to save the Result table as a JMP table.

Save Proportion of Missing Markers

Use this option to add a column to the original data table containing the proportion of missing markers in each row.

Select Where

Use this option to subset the Result Table based on specified criteria.

Select Columns

Select row in the Result Table and then use this option to select the corresponding columns in the original data table.

Recode Marker

Recodes all the selected marker columns in the original data table by switching the major and minor alleles.

Want more information? Have questions? Get answers in the JMP User Community (community.jmp.com).