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Description
After doing some initial data preparation steps, PBS consists of doing:
- an allele count for each population.
sgkit.count_alleles
will do this.
- locate and subset to segregating variants at sufficient frequency.
-requires anis_biallelic_01
function.
-requires ato_frequencies
function, or some equivalent operation. - setup windows over the genome.
-requires amoving_statistic
function. - calculate the PBS in a moving window.
-requires apbs
function.
Here is the notebook that @alimanfoo made.
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