Daniel P Wood

Dear Pasi, Many thanks for your response - I will try setting those interference parameters to 1 and see what difference that makes. That's good to know, thanks! Best wishes, Daniel Wood

Dear Pasi, I'm a little confused about sex specific mapping distances, I'm hoping you could give me some advice. I am using Lep-Map3 to analyse plant F2s resulting from a single selfed F1 individual. The parents of the F1 are also sequenced which I have used to phase the data (withgrandparentPhase=1). I've included two dummy F1 individuals in the pedigree file (please see QB.ped attached) as you've recommended elsewhere, and assigned the parents/grandparents sexes arbitrarily. For the SeparateChromosomes2...

Dear Pasi, Thanks a lot for your very speedy reply. That's great - seems to be working fine now. Thanks again and best wishes, Daniel Wood

Hello, I've been trying to use LepMap3 to analyse an F2 cross - we have SNPs for the grandparents (FCH...103...rmdp and FCH...102...rmdp), but not the parents. I've added dummy parents (F1A and F1B - they are the same individual, selfed) to the pedigree, please see the .ped file attached. When running ParentCall2 it outputs the sites but shows none as being informative - most are homozygous (with different alleles) in the grandparents, so maybe this is normal. However when running Filter2 on the...