Description Usage Arguments Value
use the output of generate_seqdata_1var
as input to calculate the expected genotype probability and population frequency
It calls subfunction calc_Mr
and calc_EM
for population frequency of P(G=AA,AB,BB),
It calls subfunction calc_pobs_ndepth
, calc_EG_general
and the populationfrequency for expected genotype probability
1 | seq_eg_freq(vgeno, seq, verror, vrdepth)
|
vgeno, |
the concatenated true genotype for each sample |
seq, |
the concatenated sequence data |
verror, |
the concatenated error rate for each sequence data |
vrdepth, |
the concatenated error rate for each sample |
a list including expected genotype probability (exp_prob, leng=nsample), population fequency (pop_frq,leng=3),true genotype(geno),and read depth(vrdepth), two numerics for number of cases (ncase) and controls (ncont)
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