Recombination Fraction Cutoff

Specify a recombination fraction cutoff to define clusters or linkage groups using the TREE Procedure of SAS/STAT. Depending on the Automated Linkage Group Clustering Method chosen (Average, Complete, or Single) this determines the number of linkage groups and group membership for markers. For Average, Complete, or Single linkage, groups are defined at the stage in clustering when the average, maximum, or minimum recombination between clusters is less than or equal to the specified cutoff, respectively.

Tip: In all methods, larger cutoff values correspond to a smaller number of linkage groups.

To Specify a Recombination Fraction Cutoff:

Specify Recombination Fraction Cutoff as the Define linkage groups based on the: option to activate this field.

Either type the desired value in the text field or move the slider to the right or to the left to change the value.

Tip: To change the scale of the slider, right-click on the slider and select Rescale Slider from the pop-up menu. Change the upper or lower boundaries in the window that appears, to rescale the slider and click OK.