Jessica Hintzsche

I'm seeing a strange pattern when I combine families. When I plot male vs. female map positions for a given LG (like in the example below for LG23), I sometimes see parallel bands in the regions with little to no recombination. This only appears when I combine multiple families - I'm working with 9 families (from 7 males and 3 females). When I look at maps for individual families, I don't see this pattern at all. Any advice to resolving these markers?

Hi Pasi, I'm working with the output from OrderMarkers2 in Lep-MAP3 and trying to better understand the structure of the data. At the end of each marker line-after the phased genotype strings-there are two values like 0 0. Here's a snippet for context: 31373 0.000 0.000 ( --,--;--,--;...;AC,-- ) 01010101... 0 0 I couldn't find a clear explanation in the documentation-could someone clarify what these 0 0 values represent? Are they related to recombination counts, phasing quality, or something else?...