xiaoming-liu / stairway-plot-v2

The stairway plot is a method for inferring detailed population demographic history using the site frequency spectrum (SFS) from DNA sequence data.
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Total number of loci: include the invariant ones ? #8

Open mbrieuc opened 2 years ago

mbrieuc commented 2 years ago

Good morning. I have a question regarding the number of loci to use to run stairway-plot. In the example you mention in your paper, you use about 650 millions positions, 50 kb from coding genes. Do you then use all of these positions, even the non variable positions? How did you decide on 50kb? Thanks for your help