Dustin Wilkerson

Hello, I've recently used your software to generate linkage maps for a selfed cross. It worked great and was easy to use but I want to clarify the output. From OrderMarkers2, I get two linkage maps, one 'male' and one 'female'. They have differing map lengths. The male map is roughly half the cM length of the female across all linkage groups. Why would these maps be different lengths since both parents are the same individual and how are the linkage groups sorted between them? Thank you! Dustin