Question regarding .get_lead()

[MC4R]

Hi He,

Hope you are doing well.

I have a question re windowsizekb argument used in the .get_lead(). What does windowsizekb=1000 mean here? Does it mean that it looks for lead variant within +/-1mb (that is 2mb total). Is that correct?

Cheers
Dev

[Cloufield]

Hi Dev,

Sorry for my late reply.
windowsizekb here means the size of a rolling window to determine a significant locus.
Gwaslab first find the first significant variant in a locus, and check within +/-1mb. If there are any other significant vairants within the flanking regions, the window will expand by 1mb from that variant. It will keep expanding by 1mb until there are no other lead variants within the expanded range. The variant with minimum P in this locus will be selected as lead variant.

Yunye